Table AF \[A forward subtraction\]

+-----+-------------------+-------+-----+-------------------+---+---+
| Cl  | Gene Description  | Acce  | B   | Function          | S | E |
| one | \[Source          | ssion | oth |                   | c | V |
| Num | organism\]        | N     | r   |                   | o | a |
| ber |                   | umber | xns |                   | r | l |
|     |                   |       | g   |                   | e | u |
|     |                   |       | ave |                   | i | e |
|     |                   |       | s   |                   | n |   |
|     |                   |       | ame |                   | B | ( |
|     |                   |       | BL  |                   | i | L |
|     |                   |       | AST |                   | t | o |
|     |                   |       | r   |                   | s | w |
|     |                   |       | esu |                   |   | e |
|     |                   |       | lt? |                   |   | s |
|     |                   |       |     |                   |   | t |
|     |                   |       |     |                   |   | v |
|     |                   |       |     |                   |   | a |
|     |                   |       |     |                   |   | l |
|     |                   |       |     |                   |   | u |
|     |                   |       |     |                   |   | e |
|     |                   |       |     |                   |   | ) |
+-----+-------------------+-------+-----+-------------------+---+---+
| A   | Organ-specific    | CAA   | No  | Peach Family 1    | 3 | 0 |
| F5B | protein 2         | 66109 | ^1^ |                   | 3 | . |
| -02 | \[*Cicer          |       |     | \[AF16-01 appears |   | 0 |
|     | arietinum*\]      | same  | Yes | to have a small   | 7 | 8 |
| A   |                   |       |     | deletion\]        | 5 | 3 |
| F15 |                   | same  | Yes |                   |   |   |
| -01 |                   |       |     |                   | 1 | 8 |
|     |                   | same  | Yes |                   | 0 | e |
| A   |                   |       |     |                   | 3 | - |
| F16 |                   | same  | Yes |                   |   | 1 |
| -01 |                   |       |     |                   | 8 | 8 |
|     |                   | same  | Yes |                   | 3 |   |
| AF  |                   |       |     |                   |   | 2 |
| 16C |                   | same  | Yes |                   | 1 | e |
| -02 |                   |       |     |                   | 0 | - |
|     |                   | same  | Yes |                   | 2 | 2 |
| A   |                   |       |     |                   |   | 1 |
| F17 |                   | same  | Yes |                   | 8 |   |
| -01 |                   |       |     |                   | 5 | 9 |
|     |                   | same  | Yes |                   |   | e |
| A   |                   |       |     |                   | 9 | - |
| F18 |                   | same  | Yes |                   | 8 | 1 |
| -01 |                   |       |     |                   |   | 6 |
|     |                   | same  | Yes |                   | 2 |   |
| AF  |                   |       |     |                   | 7 | 3 |
| 19A |                   | same  | No  |                   |   | e |
| -02 |                   |       | ^1^ |                   | 9 | - |
|     |                   |       |     |                   | 4 | 2 |
| AF  |                   |       |     |                   |   | 1 |
| 35B |                   |       |     |                   | 1 |   |
| -02 |                   |       |     |                   | 1 | 2 |
|     |                   |       |     |                   | 7 | e |
| AF  |                   |       |     |                   |   | - |
| 49B |                   |       |     |                   | 5 | 2 |
| -02 |                   |       |     |                   | 4 | 2 |
|     |                   |       |     |                   |   |   |
| AF  |                   |       |     |                   | 1 | 8 |
| 57C |                   |       |     |                   | 1 | e |
| -02 |                   |       |     |                   | 4 | - |
|     |                   |       |     |                   |   | 2 |
| AF  |                   |       |     |                   | 3 | 0 |
| 80C |                   |       |     |                   | 3 |   |
| -02 |                   |       |     |                   |   | 3 |
|     |                   |       |     |                   |   | . |
| AF  |                   |       |     |                   |   | 9 |
| 82C |                   |       |     |                   |   |   |
| -02 |                   |       |     |                   |   | 3 |
|     |                   |       |     |                   |   | e |
| AF  |                   |       |     |                   |   | - |
| 95A |                   |       |     |                   |   | 1 |
| -02 |                   |       |     |                   |   | 8 |
|     |                   |       |     |                   |   |   |
|     |                   |       |     |                   |   | 2 |
|     |                   |       |     |                   |   | e |
|     |                   |       |     |                   |   | - |
|     |                   |       |     |                   |   | 2 |
|     |                   |       |     |                   |   | 5 |
|     |                   |       |     |                   |   |   |
|     |                   |       |     |                   |   | 8 |
|     |                   |       |     |                   |   | e |
|     |                   |       |     |                   |   | - |
|     |                   |       |     |                   |   | 7 |
|     |                   |       |     |                   |   |   |
|     |                   |       |     |                   |   | 3 |
|     |                   |       |     |                   |   | e |
|     |                   |       |     |                   |   | - |
|     |                   |       |     |                   |   | 2 |
|     |                   |       |     |                   |   | 4 |
|     |                   |       |     |                   |   |   |
|     |                   |       |     |                   |   | 0 |
|     |                   |       |     |                   |   | . |
|     |                   |       |     |                   |   | 0 |
|     |                   |       |     |                   |   | 2 |
|     |                   |       |     |                   |   | 3 |
+-----+-------------------+-------+-----+-------------------+---+---+
| AF  | Thioredoxin       | AAM   | Yes | Redox regulation  | 7 | 8 |
| 55B | \[*Arabidopsi     | 61520 |     | of protein        | 7 | e |
| -02 | thalianas*\]      |       |     | activity and      |   | - |
|     |                   |       |     | signaling; nearly |   | 1 |
|     |                   |       |     | identical to      |   | 4 |
|     |                   |       |     | At3g06730         |   |   |
+-----+-------------------+-------+-----+-------------------+---+---+
| A   | Fructose          | T     | Yes | Glycolysis        | 2 | 2 |
| F11 | bisphosphate      | 12416 |     |                   | 3 | e |
| -01 | aldolase          |       | Yes |                   | 1 | - |
|     | \[                | same  |     |                   |   | 6 |
| AF  | *Mesembryanthemum |       |     |                   | 2 | 0 |
| 89C | crystallinum*\]   |       |     |                   | 3 |   |
| -02 |                   |       |     |                   | 3 | 2 |
|     |                   |       |     |                   |   | e |
|     |                   |       |     |                   |   | - |
|     |                   |       |     |                   |   | 6 |
|     |                   |       |     |                   |   | 0 |
+-----+-------------------+-------+-----+-------------------+---+---+
| AF  | Translati         | O     | Yes | Binds calcium and | 1 | 1 |
| 12A | onally-controlled | 03992 |     | stabilizes        | 6 | e |
| -02 | tumor protein     |       |     | microtubules;     | 2 | - |
|     | \[*Fragaria X     |       |     | associated with   |   | 3 |
|     | ananassa*\]       |       |     | regulation of     |   | 9 |
|     |                   |       |     | cell division     |   |   |
+-----+-------------------+-------+-----+-------------------+---+---+
| AF  | Acetohydroxy acid | CAB   | Yes | Ilv/Val synthesis | 2 | 3 |
| 14A | isomeroreductase  | 61890 |     |                   | 7 | e |
| -02 | \[*Pisum          |       |     |                   | 4 | - |
|     | sativum*\]        |       |     |                   |   | 7 |
|     |                   |       |     |                   |   | 3 |
+-----+-------------------+-------+-----+-------------------+---+---+
| A   | Putative splicing | NP_1  | Yes | RNA processing;   | 1 | 5 |
| F19 | factor \[*A.      | 99096 |     | U2 snRNP          | 2 | e |
| -01 | thaliana*\]       |       |     | auxiliary factor; | 7 | - |
|     |                   |       |     | At5g42820         |   | 2 |
|     |                   |       |     |                   |   | 5 |
+-----+-------------------+-------+-----+-------------------+---+---+
| A   | Expressed protein | NP_5  | Yes | note:several      | 9 | 1 |
| F23 | \[*A. thaliana*\] | 67555 |     | frames seem to    | 5 | e |
| -01 |                   |       | No  | work in BLAST     |   | - |
|     | same              | same  |     |                   | 9 | 1 |
| AF  |                   |       |     | At4g18400         | 5 | 8 |
| 78A |                   |       |     |                   |   |   |
| -02 |                   |       |     |                   |   | 7 |
|     |                   |       |     |                   |   | e |
|     |                   |       |     |                   |   | - |
|     |                   |       |     |                   |   | 1 |
|     |                   |       |     |                   |   | 9 |
+-----+-------------------+-------+-----+-------------------+---+---+
| AF  | Cytosolic         | AAD   | Yes | Oxidative stress  | 3 | 7 |
| 23C | ascorbate         | 41407 |     | responses         | 2 | e |
| -02 | peroxidase        |       | Yes |                   | 5 | - |
|     | \[*Fragaria X     | same  |     |                   |   | 8 |
| A   | ananassa*\]       |       |     |                   | 2 | 8 |
| F5A |                   |       |     |                   | 6 |   |
| -02 |                   |       |     |                   | 6 | 1 |
|     |                   |       |     |                   |   | e |
|     |                   |       |     |                   |   | - |
|     |                   |       |     |                   |   | 7 |
|     |                   |       |     |                   |   | 8 |
+-----+-------------------+-------+-----+-------------------+---+---+
| AF  | Organ-specific    | CAA   | Yes | Peach Family 2    | 5 | 7 |
| 33C | protein 2         | 66109 |     |                   | 5 | e |
| -02 | \[*Cicer          |       |     |                   |   | - |
|     | arietinum*\]      |       |     |                   |   | 7 |
+-----+-------------------+-------+-----+-------------------+---+---+
| AF  | PSI P700          | NP_8  | No  | Photosynthesis    | 1 | 2 |
| 33B | apoprotein A2     | 62753 | ^3^ |                   | 5 | e |
| -02 | \[*Calycanthus    |       |     |                   | 0 | - |
|     | fertilis*\]       |       |     |                   |   | 4 |
|     |                   |       |     |                   |   | 3 |
+-----+-------------------+-------+-----+-------------------+---+---+
| AF  | 60S ribosomal     | NP_8  | Yes | Chloroplast       | 6 | 6 |
| 56B | protein           | 62777 |     | protein, L20      | 5 | e |
| -02 | \[Calycanthus     |       |     |                   |   | - |
|     | florida\]         |       |     |                   |   | 1 |
|     |                   |       |     |                   |   | 0 |
+-----+-------------------+-------+-----+-------------------+---+---+
| AF  | Hypothetical      | BX8   | Yes | At1g69230         | 6 | 3 |
| 76A | protein \[*A.     | 17727 |     | (BLASTn);         | 0 | e |
| -02 | thaliana*\]       |       |     | putative          |   | - |
|     |                   |       |     | nit               |   | 6 |
|     |                   |       |     | rilase-associated |   |   |
|     |                   |       |     | protein           |   |   |
+-----+-------------------+-------+-----+-------------------+---+---+

Table AR \[A reverse subtraction\]

+-------+------------------+------+------+-------------------+---+---+
| Clone | Gene Description | Gene | Both | Function          | S | E |
| N     | \[Source         | Id   | rxns |                   | c | V |
| umber | organism\]       | enti | gave |                   | o | a |
|       |                  | fica | same |                   | r | l |
|       |                  | tion | B    |                   | e | u |
|       |                  | Nu   | LAST |                   | i | e |
|       |                  | mber | res  |                   | n |   |
|       |                  |      | ult? |                   | B | \ |
|       |                  |      |      |                   | i | [ |
|       |                  |      |      |                   | t | L |
|       |                  |      |      |                   | s | o |
|       |                  |      |      |                   |   | w |
|       |                  |      |      |                   |   | e |
|       |                  |      |      |                   |   | s |
|       |                  |      |      |                   |   | t |
|       |                  |      |      |                   |   | v |
|       |                  |      |      |                   |   | a |
|       |                  |      |      |                   |   | l |
|       |                  |      |      |                   |   | u |
|       |                  |      |      |                   |   | e |
|       |                  |      |      |                   |   | \ |
|       |                  |      |      |                   |   | ] |
+-------+------------------+------+------+-------------------+---+---+
| AR    | Expressed        | N    | Yes  | Contains weak     | 1 | 9 |
| 41-01 | protein          | M_11 |      | similarity to     | 7 | e |
|       | \[*Arabidopsis   | 6078 | Yes  | isopenicillin N   | 6 | - |
| AR    | thaliana*\]      |      |      | epimerase from    |   | 4 |
| 42-01 |                  | same | Yes  | *Streptomyces     | 2 | 8 |
|       |                  |      |      | clavuligerus,*    | 8 |   |
| AR1   |                  | same | Yes  | At3g62130         | 1 | 5 |
| 1A-02 |                  |      |      | **Note:these      |   | e |
|       |                  | same | Yes  | clones are        | 2 | - |
| AR1   |                  |      |      | essentially       | 7 | 7 |
| 2C-02 |                  | AAP4 |      | identical and are | 7 | 5 |
|       |                  | 9518 |      | not found in any  |   |   |
| AR3   |                  |      |      | other subtraction | 2 | 2 |
| 8B-02 |                  |      |      | combination**     | 7 | e |
|       |                  |      |      |                   | 6 | - |
|       |                  |      |      |                   |   | 7 |
|       |                  |      |      |                   | 2 | 3 |
|       |                  |      |      |                   | 1 |   |
|       |                  |      |      |                   | 1 | 2 |
|       |                  |      |      |                   |   | e |
|       |                  |      |      |                   |   | - |
|       |                  |      |      |                   |   | 7 |
|       |                  |      |      |                   |   | 3 |
|       |                  |      |      |                   |   |   |
|       |                  |      |      |                   |   | 2 |
|       |                  |      |      |                   |   | e |
|       |                  |      |      |                   |   | - |
|       |                  |      |      |                   |   | 5 |
|       |                  |      |      |                   |   | 3 |
+-------+------------------+------+------+-------------------+---+---+
| AR    | Rubber           | N    | Yes  | Allergenic to     | 1 | 1 |
| 46-01 | elongation       | M-10 |      | people with spina | 7 | e |
|       | factor related   | 5404 |      | bifida;           | 1 | - |
|       | protein \[*A.    |      |      | otherwise, not a  |   | 4 |
|       | thaliana*\]      |      |      | major allergen;   |   | 1 |
|       |                  |      |      | At1g67360         |   |   |
+-------+------------------+------+------+-------------------+---+---+
| AR    | -1,3 glucanase  | AY17 | Yes  | Stress related;   | 8 | 4 |
| 53-01 | \[*Fragaria* X   | 0375 |      | cell wall         | 4 | e |
|       | *ananassa*\]     |      | Yes  | metabolism        |   | - |
| AR6   |                  | AB10 |      |                   | 4 | 1 |
| 7B-02 | same             | 6653 | Yes  |                   | 9 | 6 |
|       |                  |      |      |                   |   |   |
| AR4   | \[*Nicotiana     | AF14 |      |                   | 6 | 3 |
| 3B-02 | tabacum*\]       | 1653 |      |                   | 0 | e |
|       |                  |      |      |                   |   | - |
|       |                  |      |      |                   |   | 5 |
|       |                  |      |      |                   |   |   |
|       |                  |      |      |                   |   | 2 |
|       |                  |      |      |                   |   | e |
|       |                  |      |      |                   |   | - |
|       |                  |      |      |                   |   | 8 |
+-------+------------------+------+------+-------------------+---+---+
| AR    | ORF2, similar to | 1308 | N    | {not the same as  | 5 | 4 |
| 8A-02 | soybean nodulin  | 219B | o^1^ | the               | 9 | e |
|       | \[*Glycine       |      |      | organ-specific    |   | - |
| AR4   | max*\]           | same | Yes  | protein gene}     | 5 | 8 |
| 9B-02 |                  |      |      |                   | 5 |   |
|       |                  | same | Yes  |                   |   | 1 |
| AR5   |                  |      |      |                   | 5 | e |
| 0A-02 |                  | same | Yes  |                   | 5 | - |
|       |                  |      |      |                   |   | 6 |
| AR5   |                  |      |      |                   | 5 |   |
| 0C-02 |                  |      |      |                   | 5 | 2 |
|       |                  |      |      |                   |   | e |
|       |                  |      |      |                   |   | - |
|       |                  |      |      |                   |   | 6 |
|       |                  |      |      |                   |   |   |
|       |                  |      |      |                   |   | 1 |
|       |                  |      |      |                   |   | e |
|       |                  |      |      |                   |   | - |
|       |                  |      |      |                   |   | 6 |
+-------+------------------+------+------+-------------------+---+---+
| AR1   | Dehydrin         | AF20 | Yes  | *Ppdhn3*; Little  | 1 | 2 |
| 4A-02 | \[*Prunus        | 9908 |      | similarity to     | 0 | e |
|       | dulcis*\]        |      |      | *Ppdhn1* or *2*   | 5 | - |
|       |                  |      |      |                   |   | 2 |
|       |                  |      |      |                   |   | 1 |
+-------+------------------+------+------+-------------------+---+---+
| AR1   | Class IV         | N    | Yes  | Probably          | 1 | 2 |
| 6C-02 | Chitinase,       | M_11 |      | stress/pathogen   | 8 | e |
| AR2   | family 19 \[*A.  | 5302 | Yes  | responsive;       | 3 | - |
| 6D-02 | thaliana*\]      |      |      | At3g54420         |   | 4 |
|       |                  | same |      |                   | 1 | 5 |
|       |                  |      |      |                   | 8 |   |
|       |                  |      |      |                   | 3 | 2 |
|       |                  |      |      |                   |   | e |
|       |                  |      |      |                   |   | - |
|       |                  |      |      |                   |   | 4 |
|       |                  |      |      |                   |   | 5 |
+-------+------------------+------+------+-------------------+---+---+
| AR1   | Ribosomal        | AF30 | Yes  | Translation;      | 1 | 1 |
| 7C-02 | Protein L17      | 7336 |      | Domain similar to | 5 | e |
|       | \[*Petunia       |      |      | rProtein L22      | 9 | - |
|       | hybrida*\]       |      |      |                   |   | 3 |
|       |                  |      |      |                   |   | 8 |
+-------+------------------+------+------+-------------------+---+---+
| AR1   | Hypothetical     | AF32 | Yes  | At5g17460         | 1 | 1 |
| 1C-02 | protein \[*A.    | 4993 |      |                   | 1 | e |
|       | thaliana*\]      |      | Yes  | same              | 4 | - |
| AR7   |                  | same |      |                   |   | 2 |
| 0B-02 | Same             |      | Yes  | Has PQ loop       | 1 | 4 |
|       |                  | AY04 |      | domain and other  | 1 |   |
| AR1   | Hypothetical     | 6029 | Yes  | repeats;          | 2 | 7 |
| 9A-02 | protein \[*A.    |      |      | At4g36850         |   | e |
|       | thaliana*\]      | AY08 |      |                   | 3 | - |
| AR1   |                  | 5057 |      | Has TRAF/MATH     | 8 | 2 |
| 9C-02 | Hypothetical     |      |      | domain; some      | 7 | 4 |
|       | protein \[*A.    |      |      | similarity to     |   |   |
|       | thaliana*\]      |      |      | ubiquitin         | 1 | 1 |
|       |                  |      |      | protease 12;      | 2 | e |
|       |                  |      |      | At3g17380         | 1 | - |
|       |                  |      |      |                   |   | 1 |
|       |                  |      |      |                   |   | 0 |
|       |                  |      |      |                   |   | 6 |
|       |                  |      |      |                   |   |   |
|       |                  |      |      |                   |   | 1 |
|       |                  |      |      |                   |   | e |
|       |                  |      |      |                   |   | - |
|       |                  |      |      |                   |   | 2 |
|       |                  |      |      |                   |   | 6 |
+-------+------------------+------+------+-------------------+---+---+
| AR4   | Glyceraldehyde 3 | AJ24 | Yes  | Glycolysis;       | 3 | 6 |
| 4B-02 | Phosphate        | 6011 |      | chloroplastic     | 4 | e |
|       | Dehydrogenase    |      |      |                   | 8 | - |
|       | \[*Capsicum      |      |      |                   |   | 9 |
|       | annuum*\]        |      |      |                   |   | 5 |
+-------+------------------+------+------+-------------------+---+---+
| AR2   | Thaumatin        | P8   | Yes  | Defense; PR gene; | 1 | 5 |
| 7A-02 | \[*Prunus        | 3335 |      | *PpAZ8*           | 2 | e |
|       | persica*\]       |      | N    |                   | 7 | - |
| AR5   |                  | same | o^2^ | *PpAZ44*          |   | 2 |
| 7B-02 |                  |      |      |                   | 9 | 9 |
|       |                  | same | Yes  |                   | 5 |   |
| AR5   |                  |      |      |                   |   | 5 |
| 9B-02 |                  | same | Yes  |                   | 1 | e |
| AR7   |                  |      |      |                   | 2 | - |
| 2A-02 |                  | P8   | N    |                   | 9 | 1 |
|       |                  | 3332 | o^2^ |                   |   | 9 |
| AR8   |                  |      |      |                   | 2 |   |
| 3A-02 |                  | same | Yes  |                   | 7 | 1 |
|       |                  |      |      |                   | 3 | e |
| AR8   |                  |      |      |                   |   | - |
| 4A-02 |                  |      |      |                   | 4 | 2 |
|       |                  |      |      |                   | 8 | 9 |
|       |                  |      |      |                   | 5 |   |
|       |                  |      |      |                   |   | 9 |
|       |                  |      |      |                   | 3 | e |
|       |                  |      |      |                   | 7 | - |
|       |                  |      |      |                   | 4 | 7 |
|       |                  |      |      |                   |   | 3 |
|       |                  |      |      |                   |   |   |
|       |                  |      |      |                   |   | 1 |
|       |                  |      |      |                   |   | e |
|       |                  |      |      |                   |   | - |
|       |                  |      |      |                   |   | 1 |
|       |                  |      |      |                   |   | 3 |
|       |                  |      |      |                   |   | 6 |
|       |                  |      |      |                   |   |   |
|       |                  |      |      |                   |   | 1 |
|       |                  |      |      |                   |   | e |
|       |                  |      |      |                   |   | - |
|       |                  |      |      |                   |   | 1 |
|       |                  |      |      |                   |   | 3 |
|       |                  |      |      |                   |   | 0 |
+-------+------------------+------+------+-------------------+---+---+
| AR    | Unknown          |      | \-   | Group 1           |   |   |
| 1A-02 |                  |      |      |                   |   |   |
|       |                  |      |      | Group 2           |   |   |
| AR1   |                  |      |      |                   |   |   |
| 2B-02 |                  |      |      | Group 1 (Very     |   |   |
|       |                  |      |      | pro-rich in best  |   |   |
| A     |                  |      |      | transl frame)     |   |   |
| R(M)1 |                  |      |      |                   |   |   |
| 4A-02 |                  |      |      | Group 3           |   |   |
|       |                  |      |      |                   |   |   |
| AR1   |                  |      |      | Group 1           |   |   |
| 5A-02 |                  |      |      |                   |   |   |
|       |                  |      |      | Group 4           |   |   |
| AR1   |                  |      |      |                   |   |   |
| 6A-02 |                  |      |      | Group 5           |   |   |
|       |                  |      |      |                   |   |   |
| AR1   |                  |      |      | Group 5           |   |   |
| 6D-02 |                  |      |      |                   |   |   |
|       |                  |      |      | Group 1           |   |   |
| AR3   |                  |      |      |                   |   |   |
| 1B-02 |                  |      |      | Group 1           |   |   |
|       |                  |      |      |                   |   |   |
| AR3   |                  |      |      | Group 1           |   |   |
| 5A-02 |                  |      |      |                   |   |   |
|       |                  |      |      | Group 1           |   |   |
| AR3   |                  |      |      |                   |   |   |
| 6A-02 |                  |      |      | Group 7           |   |   |
|       |                  |      |      |                   |   |   |
| AR3   |                  |      |      | Group 1           |   |   |
| 7B-02 |                  |      |      |                   |   |   |
|       |                  |      |      | Group 6           |   |   |
| AR3   |                  |      |      |                   |   |   |
| 8A-02 |                  |      |      | Group 5           |   |   |
|       |                  |      |      |                   |   |   |
| A     |                  |      |      | Group 1           |   |   |
| R(M)4 |                  |      |      |                   |   |   |
| 3B-02 |                  |      |      | Group 1           |   |   |
|       |                  |      |      |                   |   |   |
| AR4   |                  |      |      | Group 1           |   |   |
| 7C-02 |                  |      |      |                   |   |   |
|       |                  |      |      |                   |   |   |
| AR5   |                  |      |      |                   |   |   |
| 8B-02 |                  |      |      |                   |   |   |
|       |                  |      |      |                   |   |   |
| AR6   |                  |      |      |                   |   |   |
| 7B-02 |                  |      |      |                   |   |   |
|       |                  |      |      |                   |   |   |
| AR7   |                  |      |      |                   |   |   |
| 5C-02 |                  |      |      |                   |   |   |
|       |                  |      |      |                   |   |   |
| AR8   |                  |      |      |                   |   |   |
| 0B-02 |                  |      |      |                   |   |   |
|       |                  |      |      |                   |   |   |
| AR8   |                  |      |      |                   |   |   |
| 1B-02 |                  |      |      |                   |   |   |
|       |                  |      |      |                   |   |   |
| AR8   |                  |      |      |                   |   |   |
| 4D-02 |                  |      |      |                   |   |   |
+-------+------------------+------+------+-------------------+---+---+
| AR9   | Ubiquitin        | S2   | Yes  | Protein           | 1 | 1 |
| 7A-02 | precursor        | 5164 |      | degradation       | 9 | e |
|       | \[*Helianthus    |      |      |                   | 9 | - |
|       | annuus*\]        |      |      |                   |   | 5 |
|       |                  |      |      |                   |   | 0 |
+-------+------------------+------+------+-------------------+---+---+

Table BF \[B forward subtraction\]

+-------+-----------------+------+------+-------------------+---+---+
| Clone | Gene            | Gene | Both | Functional Group  | S | E |
| N     | Description     | Id   | rxns |                   | c | V |
| umber | \[Source        | enti | gave |                   | o | a |
|       | organism\]      | fica | same |                   | r | l |
|       |                 | tion | B    |                   | e | u |
|       |                 | Nu   | LAST |                   | i | e |
|       |                 | mber | resu |                   | n |   |
|       |                 |      | lts? |                   | B | ( |
|       |                 |      |      |                   | i | L |
|       |                 |      |      |                   | t | o |
|       |                 |      |      |                   | s | w |
|       |                 |      |      |                   |   | e |
|       |                 |      |      |                   |   | s |
|       |                 |      |      |                   |   | t |
|       |                 |      |      |                   |   | v |
|       |                 |      |      |                   |   | a |
|       |                 |      |      |                   |   | l |
|       |                 |      |      |                   |   | u |
|       |                 |      |      |                   |   | e |
|       |                 |      |      |                   |   | ) |
+-------+-----------------+------+------+-------------------+---+---+
| BF    | Unknown         |      | Yes  | Group 8           |   |   |
| 5A-02 |                 |      |      |                   |   |   |
|       |                 |      | Yes  | Group 8           |   |   |
| BF    |                 |      |      |                   |   |   |
| 8A-02 |                 |      | Yes  | Group 9           |   |   |
|       |                 |      |      |                   |   |   |
| BF1   |                 |      | Yes  | Group 10          |   |   |
| 9A-01 |                 |      |      |                   |   |   |
|       |                 |      | Yes  | Group 11          |   |   |
| BF2   |                 |      |      |                   |   |   |
| 4A-01 |                 |      | Yes  | Group 9           |   |   |
|       |                 |      |      |                   |   |   |
| BF3   |                 |      | Yes  | Group 12          |   |   |
| 0A-02 |                 |      |      |                   |   |   |
|       |                 |      | Yes  | Group 13          |   |   |
| BF3   |                 |      |      |                   |   |   |
| 3A-01 |                 |      | N    | Group 14          |   |   |
|       |                 |      | o^1^ |                   |   |   |
| BF6   |                 |      |      | Group 15          |   |   |
| 6A-01 |                 |      | Yes  |                   |   |   |
|       |                 |      |      | Group 16          |   |   |
| BF7   |                 |      | Yes  |                   |   |   |
| 0A-01 |                 |      |      |                   |   |   |
|       |                 |      |      |                   |   |   |
| BF8   |                 |      |      |                   |   |   |
| 8A-01 |                 |      |      |                   |   |   |
|       |                 |      |      |                   |   |   |
| BF9   |                 |      |      |                   |   |   |
| 2A-01 |                 |      |      |                   |   |   |
|       |                 |      |      |                   |   |   |
| BF9   |                 |      |      |                   |   |   |
| 4A-01 |                 |      |      |                   |   |   |
+-------+-----------------+------+------+-------------------+---+---+
| BF1   | Esterase/lipase | N    | Yes  | At2g39420         | 9 | 2 |
| 2A-01 | family protein  | P_18 |      |                   | 3 | e |
|       | \[*Arabidopsis  | 1474 |      |                   |   | - |
|       | thaliana*\]     |      |      |                   |   | 1 |
|       |                 |      |      |                   |   | 8 |
+-------+-----------------+------+------+-------------------+---+---+
| BF1   | Ribosomal       | AP00 | No2  | Translation;      | 2 | 2 |
| 3B-01 | protein \[*O.   | 5612 |      | similar to L10a   | 2 | e |
|       | sativa*\]       |      |      |                   | 9 | - |
|       |                 |      |      |                   |   | 6 |
|       |                 |      |      |                   |   | 4 |
+-------+-----------------+------+------+-------------------+---+---+
| BF1   | Phosphatase 1   | P4   | Yes  | Signal            | 4 | 1 |
| 4A-01 | \[*Medicago     | 8488 |      | transduction;     | 7 | e |
|       | sativa*\]       |      |      | PP1; ser/thr prot | 9 | - |
|       |                 |      |      | phos              |   | 1 |
|       |                 |      |      |                   |   | 3 |
|       |                 |      |      |                   |   | 4 |
+-------+-----------------+------+------+-------------------+---+---+
| BF1   | Amino acid      | N    | Yes  | Amino acid        | 4 | 7 |
| 5A-02 | transporter     | P_19 |      | metabolism;       | 4 | e |
|       | \[*A.           | 7770 | Yes  | At5g23810         |   | - |
| BF1   | thaliana*\]     |      |      |                   | 4 | 4 |
| 6A-02 |                 | Same |      |                   | 4 |   |
|       |                 |      |      |                   |   | 7 |
|       |                 |      |      |                   |   | e |
|       |                 |      |      |                   |   | - |
|       |                 |      |      |                   |   | 4 |
+-------+-----------------+------+------+-------------------+---+---+
| BF1   | Photosystem II  | BAA8 | Yes  | Chloroplast       | 3 | 1 |
| 5A-01 | protein D2      | 3443 |      | protein           | 0 | e |
|       | \[*Anthoceros   |      |      | associated with   | 0 | - |
|       | punctata*\]     |      |      | Photosystem II    |   | 1 |
|       |                 |      |      |                   |   | 0 |
|       |                 |      |      |                   |   | 3 |
+-------+-----------------+------+------+-------------------+---+---+
| BF1   | -cyanoalanine  | AAN8 | Yes  | Detoxification of | 1 | 5 |
| 6A-01 | synthetase      | 6822 |      | CN formed from    | 4 | e |
|       | \[*Betula       |      | Yes  | ethylene; enzyme  | 7 | - |
| BF5   | pendula*\]      | same |      | probably located  |   | 3 |
| 4A-01 |                 |      |      | to mitochondria   | 1 | 5 |
|       |                 |      |      |                   | 4 |   |
|       |                 |      |      |                   | 7 | 5 |
|       |                 |      |      |                   |   | e |
|       |                 |      |      |                   |   | - |
|       |                 |      |      |                   |   | 3 |
|       |                 |      |      |                   |   | 5 |
+-------+-----------------+------+------+-------------------+---+---+
| BF1   | Metallothionein | BAA9 | Yes  | Heavy metal       | 4 | 5 |
| 7A-01 | protein         | 6449 |      | homeostasis (ref) | 8 | e |
|       | \[*Pyrus        |      | Yes  |                   |   | - |
| BF2   | pyrifolia*\]    | same |      |                   | 4 | 5 |
| 1A-01 |                 |      |      |                   | 3 |   |
|       |                 |      |      |                   |   | 0 |
|       |                 |      |      |                   |   | . |
|       |                 |      |      |                   |   | 0 |
|       |                 |      |      |                   |   | 0 |
|       |                 |      |      |                   |   | 2 |
+-------+-----------------+------+------+-------------------+---+---+
| BF1   | S               | N    | Yes  | Pat               | 8 | 2 |
| 8A-01 | tress-inducible | P_91 |      | hogenesis-related | 6 | e |
|       | protein \[*O.   | 0312 |      | protein           |   | - |
|       | sativa*\]       |      |      |                   |   | 1 |
|       |                 |      |      |                   |   | 6 |
+-------+-----------------+------+------+-------------------+---+---+
| BF2   | Ribosomal       | N    | Yes  | Translation;      | 2 | 7 |
| 0A-01 | protein \[*O.   | P_91 |      | L28-like          | 2 | e |
|       | sativa*\]       | 6542 |      |                   | 2 | - |
|       |                 |      |      |                   |   | 5 |
|       |                 |      |      |                   |   | 7 |
+-------+-----------------+------+------+-------------------+---+---+
| BF2   | phi-1           | BAA3 | Yes  | Ph                | 3 | 5 |
| 2A-01 | \[*Nicotiana    | 3810 |      | osphate-inducible | 1 | e |
|       | tabacum*\]      |      |      | gene              | 1 | - |
|       |                 |      |      |                   |   | 8 |
|       |                 |      |      |                   |   | 4 |
+-------+-----------------+------+------+-------------------+---+---+
| BF2   | Possible        | N    | Yes  | PR protein; Lipid | 8 | 4 |
| 6B-01 | non-specific    | P_91 |      | metabolism?       | 2 | e |
|       | lipid transfer  | 9079 |      |                   |   | - |
|       | protein \[*O.   |      |      |                   |   | 1 |
|       | sativa*\]       |      |      |                   |   | 5 |
+-------+-----------------+------+------+-------------------+---+---+
| BF3   | Expressed       | N    | Yes  | At2g12905         | 5 | 5 |
| 5B-01 | Protein \[*A.   | P_67 |      |                   | 7 | e |
|       | thaliana*\]     | 1841 | Yes  | Reticulon family; |   | - |
| BF5   |                 |      |      | At4g23630 \[ =    | 1 | 1 |
| 5A-01 | Expressed       | N    | Yes  | BR44-01\]         | 7 | 2 |
|       | protein \[*A.   | P_19 |      |                   | 6 |   |
| BF6   | thaliana*\]     | 4094 | Yes  | At4g31130         |   | 1 |
| 2A-01 |                 |      |      |                   | 2 | e |
|       | Expressed       | N    |      | Similar to        | 6 | - |
| BF9   | protein \[*A.   | P_19 |      | 7-transmembrane   | 1 | 4 |
| 0A-01 | thaliana*\]     | 4842 |      | and G-coupled     |   | 3 |
|       |                 |      |      | proteins;         | 3 |   |
|       | Expressed       | N    |      | At3g09570         | 3 | 1 |
|       | protein \[*A.   | P_18 |      |                   | 7 | e |
|       | thaliana*\]     | 7568 |      |                   |   | - |
|       |                 |      |      |                   |   | 6 |
|       |                 |      |      |                   |   | 8 |
|       |                 |      |      |                   |   |   |
|       |                 |      |      |                   |   | 7 |
|       |                 |      |      |                   |   | e |
|       |                 |      |      |                   |   | - |
|       |                 |      |      |                   |   | 9 |
|       |                 |      |      |                   |   | 2 |
+-------+-----------------+------+------+-------------------+---+---+
| BF1   | Hypothetical    | AAP2 | Yes  | Different from    | 1 | 4 |
| 1A-01 | protein         | 1410 |      | BF23A-01          | 7 | e |
|       | \[*Oryza        |      | Yes  |                   | 1 | - |
| BF2   | sativa*\]       | CAE0 |      | At2g27280         |   | 4 |
| 3A-01 |                 | 2140 | Yes  |                   | 6 | 2 |
|       | same            |      |      | \[different from  | 1 |   |
| BF2   |                 | A8   | Yes  | BF11A-01 and      |   | 1 |
| 7A-02 | Hypothetical    | 4671 |      | BF23A-01\]        | 2 | e |
|       | protein \[*A.   |      | Yes  |                   | 2 | - |
| BF3   | thaliana*\]     | AAO6 |      | Related to *A.    | 1 | 8 |
| 2A-01 |                 | 3778 | Yes  | thaliana* protein |   |   |
|       | Hypothetical    |      |      | with heavy metal  | 1 | 2 |
| BF3   | Protein         | BAD0 | Yes  | domain            | 0 | e |
| 4A-01 | \[*Populus      | 7868 |      |                   | 9 | - |
|       | tremuloides*\]  |      |      | At4g31130         |   | 5 |
| BF5   |                 | AAO4 |      |                   | 5 | 6 |
| 2A-01 | Hypothetical    | 4040 |      | Harpin-inducible  | 0 |   |
|       | Protein \[*O.   |      |      | \[but record      |   | 2 |
| BF6   | sativa*\]       | N    |      | removed!\]        | 2 | e |
| 8A-01 |                 | P_91 |      |                   | 5 | - |
|       | Hypothetical    | 6003 |      |                   | 8 | 3 |
|       | protein \[*A.   |      |      |                   |   | 1 |
|       | thaliana*\]     |      |      |                   | 4 |   |
|       |                 |      |      |                   | 9 | 1 |
|       | Hypothetical    |      |      |                   |   | e |
|       | Protein \[*O.   |      |      |                   |   | - |
|       | sativa*\]       |      |      |                   |   | 5 |
|       |                 |      |      |                   |   |   |
|       |                 |      |      |                   |   | 7 |
|       |                 |      |      |                   |   | e |
|       |                 |      |      |                   |   | - |
|       |                 |      |      |                   |   | 6 |
|       |                 |      |      |                   |   | 8 |
|       |                 |      |      |                   |   |   |
|       |                 |      |      |                   |   | 2 |
|       |                 |      |      |                   |   | e |
|       |                 |      |      |                   |   | - |
|       |                 |      |      |                   |   | 5 |
+-------+-----------------+------+------+-------------------+---+---+
| BF3   | Cal             | N    | Yes  | Calcium           | 1 | 2 |
| 6A-01 | modulin-binding | P_56 |      | signaling;        | 2 | e |
|       | protein \[*A.   | 5073 |      | At1g73800         | 9 | - |
|       | thaliana*\]     |      |      |                   |   | 2 |
|       |                 |      |      |                   |   | 9 |
+-------+-----------------+------+------+-------------------+---+---+
| BF3   | Wound-induced   | P2   | Yes  | Defense/Stress    | 5 | 2 |
| 7A-01 | protein         | 0144 |      | related           | 4 | e |
|       | \[*M            |      |      |                   |   | - |
|       | esembryanthemum |      |      |                   |   | 6 |
|       | crystallinum*\] |      |      |                   |   |   |
+-------+-----------------+------+------+-------------------+---+---+
| BF3   | Major allergen  | AAS4 | Yes  | Defense/Stress    | 1 | 1 |
| 8A-01 | \[*Prunus       | 7036 |      | related           | 5 | e |
|       | avium*\]        |      |      |                   | 6 | - |
|       |                 |      |      |                   |   | 3 |
|       |                 |      |      |                   |   | 7 |
+-------+-----------------+------+------+-------------------+---+---+
| BF3   | Anthranilate    | AAM6 | Yes  | Amino acid        | 2 | 1 |
| 9A-01 | synthase        | 5944 |      | metabolism (trp   | 3 | e |
|       | β-chain \[*A.   |      |      | biosynthesis)     | 4 | - |
|       | thaliana*\]     |      |      |                   |   | 6 |
|       |                 |      |      |                   |   | 0 |
+-------+-----------------+------+------+-------------------+---+---+
| BF4   | NADH            |      | Yes  | Ubiquinone        | 1 | 2 |
| 0A-01 | dehydrogenase,  |      |      | oxidoreductase;   | 1 | e |
|       | subunit 7       |      |      | located in        | 0 | - |
|       | \[*Brassica     |      |      | mitochondrion;    |   | 2 |
|       | napus*\]        |      |      | Oxidative         |   | 3 |
|       |                 |      |      | phophorylation    |   |   |
+-------+-----------------+------+------+-------------------+---+---+
| BF4   | Putative        | AF13 | Yes  |                   | 1 | 1 |
| 3A-01 | allergen        | 4731 |      |                   | 9 | e |
|       | \[*Prunus       |      |      |                   | 6 | - |
|       | armeniaca*\]    |      |      |                   |   | 4 |
|       |                 |      |      |                   |   | 7 |
+-------+-----------------+------+------+-------------------+---+---+
| BF4   | Omega-3 FA      | AAN1 | Yes  | Fatty acid        | 3 | 1 |
| 5A-01 | desaturase      | 7503 |      | metabolism        | 9 | e |
|       | \[*Betula       |      |      |                   | 8 | - |
|       | pendula*\]      |      |      |                   |   | 1 |
|       |                 |      |      |                   |   | 1 |
|       |                 |      |      |                   |   | 0 |
+-------+-----------------+------+------+-------------------+---+---+
| BF4   |  amylase       | AAD3 | Yes  | Starch metabolism | 2 | 5 |
| 9A-01 | \[*Prunus       | 8148 |      |                   | 5 | e |
|       | armeniaca*\]    |      |      |                   | 4 | - |
|       |                 |      |      |                   |   | 6 |
|       |                 |      |      |                   |   | 7 |
+-------+-----------------+------+------+-------------------+---+---+
| BF6   | Keto-acyl       | AAB8 | Yes  | Cuticle wax       | 1 | 1 |
| 4A-01 | reductase       | 2764 |      | synthesis?        | 0 | e |
|       | \[Allium        |      |      |                   | 7 | - |
|       | porrum\]        |      |      |                   |   | 2 |
|       |                 |      |      |                   |   | 2 |
+-------+-----------------+------+------+-------------------+---+---+
| BF7   | 14-3-3-like     | BAB4 | Yes  | Various processes | 3 | 5 |
| 1A-01 | protein         | 7118 |      | via               | 5 | e |
|       | \[*Vigna        |      | Yes  | protein-protein   | 9 | - |
| BF7   | angularis*\]    |      |      | interaction;      |   | 9 |
| 6A-01 |                 |      |      | different from    | 3 | 8 |
|       | same            |      |      | CF66A-02 and      | 7 |   |
|       |                 |      |      | CR90A-02          | 1 | 1 |
|       |                 |      |      |                   |   | e |
|       |                 |      |      |                   |   | - |
|       |                 |      |      |                   |   | 1 |
|       |                 |      |      |                   |   | 0 |
|       |                 |      |      |                   |   | 2 |
+-------+-----------------+------+------+-------------------+---+---+
| BF7   | 30S ribosomal   | AAM6 | Yes  | Chloroplast       | 2 | 1 |
| 2A-01 | protein \[*A.   | 3199 |      | encoded;          | 2 | e |
|       | thaliana*\]     |      |      | translation       | 1 | - |
|       |                 |      |      |                   |   | 5 |
|       |                 |      |      |                   |   | 6 |
+-------+-----------------+------+------+-------------------+---+---+
| BF7   | L               | N    | Yes  | Has GDSL-motif;   | 2 | 7 |
| 9A-01 | ipase/hydrolase | P_17 |      | At1g74460         | 9 | e |
|       | \[*A.           | 7586 |      |                   | 1 | - |
|       | thaliana*\]     |      |      |                   |   | 7 |
|       |                 |      |      |                   |   | 8 |
+-------+-----------------+------+------+-------------------+---+---+
| BF8   | Mitochondrial   | N    | Yes  | G subunit;        | 1 | 4 |
| 6A-01 | ATP synthase, g | P_19 |      | respiration;      | 1 | e |
|       | subunit, \[*A.  | 4351 |      | At4g26210         | 5 | - |
|       | thaliana*\]     |      |      |                   |   | 2 |
|       |                 |      |      |                   |   | 5 |
+-------+-----------------+------+------+-------------------+---+---+
| BF8   | Putative        | AAP8 | Yes  | Disease           | 3 | 4 |
| 9A-01 | xyloglucanase   | 4703 |      | r                 | 5 | e |
|       | inhibitor \[*S. |      |      | esistance/defense | 5 | - |
|       | tuberosum*\]    |      |      |                   |   | 9 |
|       |                 |      |      |                   |   | 7 |
+-------+-----------------+------+------+-------------------+---+---+
| BF9   | Some sort of    | AAF9 | Yes  | At1g24420 and     | 1 | 8 |
| 1A-01 | transferase     | 7979 |      | At1g24430         | 3 | e |
|       | \[*A.           |      |      |                   | 4 | - |
|       | thaliana*\]     |      |      |                   |   | 3 |
|       |                 |      |      |                   |   | 1 |
+-------+-----------------+------+------+-------------------+---+---+
| BF9   | Synpt           | AAQ1 | Yes  | Intracellular     | 2 | 1 |
| 5A-01 | obrevin-related | 5287 |      | traf              | 9 | e |
|       | protein \[*P.   |      |      | ficking/secretion | 0 | - |
|       | pyrifolia*\]    |      |      |                   |   | 7 |
|       |                 |      |      |                   |   | 7 |
+-------+-----------------+------+------+-------------------+---+---+

Table BR \[B reverse subtraction\]

<table>
<colgroup>
<col style="width: 8%" />
<col style="width: 30%" />
<col style="width: 11%" />
<col style="width: 6%" />
<col style="width: 1%" />
<col style="width: 25%" />
<col style="width: 0%" />
<col style="width: 6%" />
<col style="width: 0%" />
<col style="width: 7%" />
</colgroup>
<tbody>
<tr class="odd">
<td>Clone Number</td>
<td>Gene Description [Source Organism]</td>
<td>Gene Identification Number</td>
<td>Both rxns gave same BLAST result?</td>
<td colspan="3">Function</td>
<td colspan="2">Score in Bits</td>
<td><p>E Value</p>
<p>(Lowest value)</p></td>
</tr>
<tr class="even">
<td>BR11-01</td>
<td><p>Some sort of transferase [<em>Arabidopsis thaliana</em>]</p>
<p>Note: same as BR33B-02</p></td>
<td>NP_199780</td>
<td>Yes</td>
<td colspan="3">Most similar to UDP-glycosyltransferase family;
At5g49690; not same as BF91A-01</td>
<td colspan="2">230</td>
<td>1e-59</td>
</tr>
<tr class="odd">
<td>BR12-01</td>
<td>Dehydration-responsive protein RD22 [<em>Gossypium
hirsutum</em>]</td>
<td>AAL67991</td>
<td>Yes</td>
<td colspan="3">Stress related; contains BURP domain</td>
<td colspan="2">129</td>
<td>5e-29</td>
</tr>
<tr class="even">
<td>BR14-01</td>
<td><em>Nif</em>-U-like protein (iron/sulfur cluster) [<em>A.
thaliana</em>]</td>
<td>AAM66114</td>
<td>Yes</td>
<td colspan="3">Similar to prokaryotic N-fixing gene</td>
<td colspan="2">243</td>
<td>1e-63</td>
</tr>
<tr class="odd">
<td>BR15-01 BR23-01</td>
<td>6-phosphoglucanate dehydrogenase family [<em>A. thaliana</em>]</td>
<td><p>NP_186885</p>
<p>same</p></td>
<td><p>Yes</p>
<p>Yes</p></td>
<td colspan="3">Glycolysis or glucose shunt pathway</td>
<td colspan="2"><p>389</p>
<p>407</p></td>
<td><p>1e-107</p>
<p>1e-112</p></td>
</tr>
<tr class="even">
<td>BR16-01 BR32-01</td>
<td><p>-tubulin [<em>Anemia phyllitidis</em>]</p>
<p>same</p></td>
<td><p>P33623</p>
<p>same</p></td>
<td><p>Yes</p>
<p>Yes</p></td>
<td colspan="3">Microtubule formation</td>
<td colspan="2"><p>219</p>
<p>447</p></td>
<td><p>2e-56</p>
<p>1e-125</p></td>
</tr>
<tr class="odd">
<td>BR17-01</td>
<td>Proline-rich family protein [<em>A. thaliana</em>]</td>
<td>AAL31182</td>
<td>Yes</td>
<td colspan="3">Possible cell wall protein; At4g14900; not like pro-rich
translation of AR58B-02</td>
<td colspan="2">200</td>
<td>4e-51</td>
</tr>
<tr class="even">
<td>BR19-01</td>
<td>40S ribosomal protein, S6 [<em>A. thaliana</em>]</td>
<td>NP_196598</td>
<td>Yes</td>
<td colspan="3">Translation; At5g10360</td>
<td colspan="2">325</td>
<td>4e-88</td>
</tr>
<tr class="odd">
<td>BR21-01</td>
<td>Heat shock protein 82 [<em>N. tabacum</em>]</td>
<td>P36182</td>
<td>Yes</td>
<td colspan="3">Stress related; heat shock 90 family</td>
<td colspan="2">459</td>
<td>1e-128</td>
</tr>
<tr class="even">
<td>BR24-01 BR49-01</td>
<td><p>Class I chitinase [<em>A. thaliana</em>]</p>
<p>same</p></td>
<td><p>NP_188317</p>
<p>same</p></td>
<td><p>Yes</p>
<p>Yes</p></td>
<td colspan="3">Defense/Stress response; At3g16920</td>
<td colspan="2"><p>192</p>
<p>174</p></td>
<td><p>2e-48</p>
<p>8e-43</p></td>
</tr>
<tr class="odd">
<td>BR26-01</td>
<td>Ubiquitin-conjugating protein, E2 [<em>Avicennia marina</em>]</td>
<td>AAF73016</td>
<td>Yes</td>
<td colspan="3">Targeted protein degradation pathway</td>
<td colspan="2">289</td>
<td>1e-77</td>
</tr>
<tr class="even">
<td>BR39-01</td>
<td>rRNA intron homing endonuclease [<em>O. sativa</em>]</td>
<td>AAK13589</td>
<td>Yes<sup>§</sup></td>
<td colspan="3">?</td>
<td colspan="2">122</td>
<td>1e-26</td>
</tr>
<tr class="odd">
<td>BR41-01</td>
<td>Pectinesterase [<em>A. thaliana</em>]</td>
<td>NP_569041</td>
<td>Yes</td>
<td colspan="3">Cell wall metabolism; At5g66920</td>
<td colspan="2">327</td>
<td>8e-97</td>
</tr>
<tr class="even">
<td><p>BR42-01</p>
<p>BR48-01</p></td>
<td>Zinc finger protein [<em>A. thaliana</em>]</td>
<td><p>NP_191307</p>
<p>same</p></td>
<td><p>Yes</p>
<p>Yes</p></td>
<td colspan="3">Transcription factor; PMZ-related; At3g57480</td>
<td colspan="2"><p>282</p>
<p>276</p></td>
<td><p>4e-75</p>
<p>2e-73</p></td>
</tr>
<tr class="odd">
<td><p>BR44-01</p>
<p>BR59B-02</p>
<p>BR72B-02</p>
<p>BR73B-02</p></td>
<td><p>Expressed protein [<em>A. thaliana</em>]</p>
<p>Hypothetical protein [<em>O. sativa</em>]</p>
<p>same</p>
<p>same</p></td>
<td><p>NP_194094</p>
<p>NP_910689</p>
<p>same</p>
<p>same</p></td>
<td><p>Yes</p>
<p>Yes</p></td>
<td colspan="3"><p>Reticulon family; At4g23630 [BR55A-01]</p>
<p>BR59B-02 may be an allele of BR72B-02 and BR73B-02, which are
identical</p></td>
<td colspan="2"><p>174</p>
<p>69</p>
<p>67</p>
<p>67</p></td>
<td><p>1e-42</p>
<p>2e-11</p>
<p>7e-11</p>
<p>7e-11</p></td>
</tr>
<tr class="even">
<td><p>BR42B-02</p>
<p>BR51-01</p>
<p>BR61B-02</p>
<p>BR82B-02</p></td>
<td><p>Organ-specific protein P4 [<em>Pisum sativum</em>]</p>
<p>Specific tissue protein 2 [<em>Cicer arietinum</em>]</p>
<p>same</p>
<p>same</p></td>
<td><p>Gi: 129148</p>
<p>Gi:48426429</p>
<p>same</p>
<p>same</p></td>
<td colspan="2"><p>Yes</p>
<p>Yes</p>
<p>Yes</p>
<p>Yes</p></td>
<td>This sequence is present in L subtraction between different aged
controls</td>
<td colspan="2"><p>48</p>
<p>55</p>
<p>103</p>
<p>121</p></td>
<td colspan="2"><p>6e-5</p>
<p>7e-7</p>
<p>7e-27</p>
<p>1e-26</p></td>
</tr>
<tr class="odd">
<td><p>BR14B-02</p>
<p>BR55B-02</p></td>
<td>60S ribosomal protein [<em>Castanea sativa</em>]</td>
<td><p>gi:13430182</p>
<p>same</p></td>
<td colspan="2"><p>Yes</p>
<p>Yes</p></td>
<td>L17; cytoplasmic translation; wound-inducible</td>
<td colspan="2"><p>192</p>
<p>192</p></td>
<td colspan="2"><p>1e-48</p>
<p>1e-48</p></td>
</tr>
<tr class="even">
<td></td>
<td></td>
<td></td>
<td colspan="2"></td>
<td></td>
<td colspan="2"></td>
<td colspan="2"></td>
</tr>
<tr class="odd">
<td>Clone Number</td>
<td>Gene Description [Source organism]</td>
<td>Gene Identification Number</td>
<td colspan="2">Both rxns gave same BLAST result?</td>
<td>Function</td>
<td colspan="2">Score in Bits</td>
<td colspan="2"><p>E Value</p>
<p>(Lowest Value)</p></td>
</tr>
<tr class="even">
<td><p>BR18B-02</p>
<p>BR77B-02</p></td>
<td><p>Adenosylhomocysteinase-like [<em>O. sativa</em>]</p>
<p>Adenosylhomocysteinase [<em>T. aestivum</em>]</p></td>
<td><p>gi:29367605</p>
<p>gi:417745</p></td>
<td colspan="2"><p>Yes</p>
<p>Yes</p></td>
<td>Similar to wheat gene</td>
<td colspan="2"><p>431</p>
<p>394</p></td>
<td colspan="2"><p>1e-120</p>
<p>1e-109</p></td>
</tr>
<tr class="odd">
<td><p>BR20B-02</p>
<p>BR51A-02</p></td>
<td><p>Expressed protein [<em>A. thaliana</em>]</p>
<p>same</p></td>
<td><p>NP_568802</p>
<p>same</p></td>
<td colspan="2"><p>Yes</p>
<p>Yes</p></td>
<td><p>At5g53880</p>
<p>same</p></td>
<td colspan="2"><p>55</p>
<p>55</p></td>
<td colspan="2"><p>3e-7</p>
<p>2e-7</p></td>
</tr>
<tr class="even">
<td>BR21B-02</td>
<td>DnaJ protein [<em>Hevea brasiliensis</em>]</td>
<td>gi:4210948</td>
<td colspan="2">Yes</td>
<td></td>
<td colspan="2">81</td>
<td colspan="2">1e-22</td>
</tr>
<tr class="odd">
<td>BR26B-02</td>
<td>NAD-dependent malate dehydrogenase [<em>Prunus persica</em>]</td>
<td>gi:15982948</td>
<td colspan="2">Yes</td>
<td>Re-fixation of CO2 and fruit acidity</td>
<td colspan="2">419</td>
<td colspan="2">1e-116</td>
</tr>
<tr class="even">
<td>BR30B-02</td>
<td>Cytochrome b6-f complex [<em>Marchantia polymorpha</em>]</td>
<td>gi:140300</td>
<td colspan="2">Yes</td>
<td>Subunit VIII; oxidative phosphorylation</td>
<td colspan="2">59</td>
<td colspan="2">2e-08</td>
</tr>
<tr class="odd">
<td>BR33B-02</td>
<td><p>UDP-glycosyltransferase family [<em>A. thaliana</em>]</p>
<p>Note: same as BR11-01</p></td>
<td>gi:15240534</td>
<td colspan="2">Yes</td>
<td>May be associated with anthocyanin biosynthesis [At5g49690]; similar
but not identical to ER54A-02, ER97A-02</td>
<td colspan="2">230</td>
<td colspan="2">3e-59</td>
</tr>
<tr class="even">
<td><p>BR38B-02</p>
<p>BR69B-02</p></td>
<td>Chalcone synthase [<em>Malus</em> X <em>domestica</em>]</td>
<td><p>gi:21038954</p>
<p>same</p></td>
<td colspan="2">Yes</td>
<td>Anthocyanin biosynthesis; defense</td>
<td colspan="2"><p>309</p>
<p>291</p></td>
<td colspan="2"><p>2e-83</p>
<p>5e-78</p></td>
</tr>
<tr class="odd">
<td>BR39B-02</td>
<td>40S ribosomal protein, S20 [<em>A. thaliana</em>]</td>
<td>gi:15232789</td>
<td colspan="2">Yes</td>
<td>Cytoplasmic translation</td>
<td colspan="2">92</td>
<td colspan="2">3e-18</td>
</tr>
<tr class="even">
<td>BR41A-02</td>
<td>Chloroplast maturase [<em>Rubus chamaemorus</em>]</td>
<td>gi:34419968</td>
<td colspan="2">Yes</td>
<td>Match is to the 5’ UTR in BLASTn</td>
<td colspan="2">274</td>
<td colspan="2">1e-70</td>
</tr>
<tr class="odd">
<td>BR43A-02</td>
<td>Similar to myb proteins [<em>Gossypium hirsutum</em>]</td>
<td>gi:13346178</td>
<td colspan="2">Yes</td>
<td>Transcriptional control</td>
<td colspan="2">100</td>
<td colspan="2">1e-20</td>
</tr>
<tr class="even">
<td>BR44A-02</td>
<td>Putative extensin [<em>Lycopersicon esculentum</em>]</td>
<td>gi:1345539</td>
<td colspan="2">No<sup>2</sup></td>
<td>[sequence very short, but match is good despite high e value]</td>
<td colspan="2">31</td>
<td colspan="2">8.3</td>
</tr>
<tr class="odd">
<td><p>BR36A-01</p>
<p>BR37B-02</p>
<p>BR44B-02</p>
<p>BR46A-02</p>
<p>BR53B-02</p>
<p>BR54B-02</p>
<p>BR64B-02</p></td>
<td>Unknown</td>
<td></td>
<td colspan="2"></td>
<td><p>Group 17</p>
<p>Group 18</p>
<p>Group 19</p>
<p>Group 20</p>
<p>Group 21</p>
<p>Group 19</p>
<p>Group 22</p></td>
<td colspan="2"></td>
<td colspan="2"></td>
</tr>
<tr class="even">
<td>BR47A-02</td>
<td>RAD23-like [<em>L. esculentum</em>]</td>
<td>gi:5640111</td>
<td colspan="2">Yes</td>
<td>DNA excision repair</td>
<td colspan="2">57</td>
<td colspan="2">2e-07</td>
</tr>
<tr class="odd">
<td>BR48A-02</td>
<td>Abnormal inflorescence meristem [<em>A. thaliana</em>]</td>
<td>gi:15235527</td>
<td colspan="2">Yes</td>
<td>Multifunctional fatty-acid metabolism protein [At4g29010]</td>
<td colspan="2">125</td>
<td colspan="2">3e-43</td>
</tr>
<tr class="even">
<td>BR50A-02</td>
<td>SAM synthetase [<em>Caranthus roseus</em>]</td>
<td>gi:3024127</td>
<td colspan="2">Yes</td>
<td>SAM synthase 2</td>
<td colspan="2">164</td>
<td colspan="2">5e-40</td>
</tr>
<tr class="odd">
<td>BR55A-02</td>
<td>Low molecular weight Heat Shock protein [<em>P. dulcis</em>]</td>
<td>AF159562</td>
<td colspan="2">Yes</td>
<td>Class II; match in BLASTn</td>
<td colspan="2">410</td>
<td colspan="2">1e-112</td>
</tr>
<tr class="even">
<td>BR56A-02</td>
<td>Homeodomain protein [<em>Gossypium hirsutum</em>]</td>
<td>gi:22475195</td>
<td colspan="2">Yes</td>
<td>Protein GhHOX1</td>
<td colspan="2">387</td>
<td colspan="2">e-119</td>
</tr>
<tr class="odd">
<td>BR58B-02</td>
<td>Casein kinase [<em>Oryza sativa</em>]</td>
<td>gi:34909952</td>
<td colspan="2">Yes</td>
<td>Signal transduction</td>
<td colspan="2">193</td>
<td colspan="2">8e-49</td>
</tr>
<tr class="even">
<td>BR60B-02</td>
<td>Microtubule-associated protein [<em>G. hirsutum</em>]</td>
<td>gi:40253647</td>
<td colspan="2">Yes</td>
<td></td>
<td colspan="2">202</td>
<td colspan="2">2e-51</td>
</tr>
<tr class="odd">
<td>BR62B-02</td>
<td>Mitochondrial carrier protein [<em>A. thaliana</em>]</td>
<td>gi:18417739</td>
<td colspan="2">Yes</td>
<td>Not certain what process it’s associated with</td>
<td colspan="2">254</td>
<td colspan="2">2e-66</td>
</tr>
<tr class="even">
<td>BR75B-02</td>
<td>Major latex protein [<em>Fragaria</em>]</td>
<td>gi:2465015</td>
<td colspan="2">Yes</td>
<td>Defense</td>
<td colspan="2">89</td>
<td colspan="2">3e-17</td>
</tr>
<tr class="odd">
<td>BR78B-02</td>
<td>Glyceraldehyde-3-phosphate dehydrogenase [<em>Capsicum
annuum</em>]</td>
<td>gi:18072801</td>
<td colspan="2">Yes</td>
<td>Glycolysis</td>
<td colspan="2">348</td>
<td colspan="2">7e-95</td>
</tr>
<tr class="even">
<td>BR81B-02</td>
<td>Nucleic acid binding protein [<em>A. thaliana</em>]</td>
<td>gi:21618243</td>
<td colspan="2">Yes</td>
<td>Transcription or translation; RNA-binding protein homologue</td>
<td colspan="2">247</td>
<td colspan="2">2e-64</td>
</tr>
</tbody>
</table>

Table CF \[C forward subtraction\]

+-----+---------------------+------+--------+---------------+----+----+
| Cl  | Gene Description    | Gene | Both   | Function      | S  | E  |
| one | \[Source organism\] | Id   | rxns   |               | co | V  |
| Num |                     | enti | gave   |               | re | al |
| ber |                     | fica | same   |               | in | ue |
|     |                     | tion | BLAST  |               | Bi | (  |
|     |                     | Nu   | r      |               | ts | Lo |
|     |                     | mber | esult? |               |    | we |
|     |                     |      |        |               |    | st |
|     |                     |      |        |               |    | Va |
|     |                     |      |        |               |    | lu |
|     |                     |      |        |               |    | e) |
+-----+---------------------+------+--------+---------------+----+----+
| C   | Unknown             |      | Yes    | Group 1       |    |    |
| F7A |                     |      |        |               |    |    |
| -02 |                     |      | Yes    | Group 23      |    |    |
|     |                     |      |        |               |    |    |
| CF  |                     |      | Yes    | Group 24      |    |    |
| 12A |                     |      |        |               |    |    |
| -01 |                     |      | No^2^  | Group 4       |    |    |
|     |                     |      |        |               |    |    |
| CF  |                     |      | No^2^  | Group 1       |    |    |
| 12A |                     |      |        |               |    |    |
| -02 |                     |      |        |               |    |    |
|     |                     |      |        |               |    |    |
| CF  |                     |      |        |               |    |    |
| 18A |                     |      |        |               |    |    |
| -02 |                     |      |        |               |    |    |
|     |                     |      |        |               |    |    |
| CF  |                     |      |        |               |    |    |
| 27A |                     |      |        |               |    |    |
| -02 |                     |      |        |               |    |    |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | Probable            | gi:  | Yes    | Contains a    | 1  | 2  |
| 68A | steroid-binding     | 1014 |        | heme/cytb5    | 30 | e- |
| -01 | protein \[*O.       | 0799 |        | domain        |    | 29 |
|     | sativa*\]           |      |        |               |    |    |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | M                   | gi   | Yes    | Same as       | 89 | 4  |
| 78A | etallothionein-like | :266 |        | CR30B-02 by   |    | e- |
| -01 | protein \[*P.       | 2415 |        | alignment,    |    | 17 |
|     | armeniaca*\]        |      |        | but has \~ 21 |    |    |
|     |                     |      |        | extra bases   |    |    |
|     |                     |      |        | before polyA  |    |    |
|     |                     |      |        | tail          |    |    |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | AMP-binding protein | gi:  | Yes    | AMP-synt      | 2  | 6  |
| 95A | \[*A. thaliana*\]   | 1522 |        | hetase/ligase | 43 | e- |
| -01 |                     | 8909 |        | family        |    | 64 |
|     |                     |      |        | protein       |    |    |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | SKP1-like protein   | gi:  | Yes    | F-box domain  | 85 | 5  |
| 20A | \[*O. sativa*\]     | 3248 |        | protein       |    | e- |
| -02 |                     | 9068 |        | family        |    | 16 |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | Expressed protein   | gi:  | No^2^  | Similar to    | 79 | 1  |
| 22A | \[*A. thaliana*\]   | 1839 |        | phospha       |    | e- |
| -02 |                     | 9355 |        | tidylglycerol |    | 14 |
|     |                     |      |        | and           |    |    |
|     |                     |      |        | phospha       |    |    |
|     |                     |      |        | tidylinositol |    |    |
|     |                     |      |        | transfer      |    |    |
|     |                     |      |        | proteins;     |    |    |
|     |                     |      |        | contains ML   |    |    |
|     |                     |      |        | domain        |    |    |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | AUX/IAA Family      | gi:  | Yes    | Auxin         | 54 | 8e |
| 24A | \[*A. thaliana*\]   | 1523 |        | metabolism?   |    | -7 |
| -02 |                     | 5556 |        | Transcription |    |    |
|     |                     |      |        | Factor?       |    |    |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | Ribosomal protein   | gi:  | Yes    | Chloroplast   | 2  | 2  |
| 29A | L16 \[*Spinacia     | 1149 |        | ribosomal     | 43 | e- |
| -02 | oleraceae*\]        | 7564 |        | protein       |    | 63 |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | 40S ribosomal       | gi:  | No^2^  | Protein       | 1  | 2  |
| 37A | protein S4 \[*O.    | 3491 |        | synthesis     | 11 | e- |
| -02 | sativa*\]           | 5072 |        |               |    | 23 |
|     |                     |      |        |               | 4  |    |
| CF  | 40S ribosomal       |      |        |               | 54 | 1e |
| 51A | protein \[*A.       |      |        |               |    | -1 |
| -02 | thaliana*\]         |      |        |               |    | 26 |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | C2                  | gi:  | Yes    | Phospho       | 3  | 2  |
| 39A | domain-containing   | 3069 |        | lipid-binding | 07 | e- |
| -02 | protein \[*A.       | 6612 |        | proteins have |    | 82 |
|     | thaliana*\]         |      |        | this domain   |    |    |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | Auxin efflux        | gi:  | Yes    | Auxin         | 1  | 9  |
| 43A | carrier protein     | 1841 |        | transport     | 14 | e- |
| -02 | family \[*A.        | 1126 |        |               |    | 25 |
|     | thaliana*\]         |      |        |               |    |    |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | Putative            | gi:  | Yes    | Homologue of  | 1  | 6  |
| 47A | dessi               | 1825 |        | LEA genes     | 00 | e- |
| -02 | cation-protectorant | 2327 |        |               |    | 21 |
|     | protein \[*Pyrus    |      |        |               |    |    |
|     | communis*\]         |      |        |               |    |    |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | Putative            | gi:  | No^1^  | Also similar  | 2  | 6  |
| 50A | chloroplastic       | 2232 |        | to            | 25 | e- |
| -02 | RNA-binding protein | 8724 |        | s             |    | 58 |
|     | \[*A. thaliana*\]   |      |        | alt-inducible |    |    |
|     |                     |      |        | protein from  |    |    |
|     |                     |      |        | *A. thaliana* |    |    |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | Mitochondrial ATP   | g    | No^2^  | Respiration   | 3  | 2  |
| 56A | synthase, beta      | i:23 |        |               | 27 | e- |
| -02 | chain \[*Hevea      | 1586 |        |               |    | 88 |
|     | brasiliensis*\]     |      |        |               |    |    |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | Se                  | gi:  | Yes    | Similar to    | 1  | 1  |
| 59A | nescence-associated | 1522 |        | senescen      | 00 | e- |
| -02 | protein \[*A.       | 4802 |        | ce-associated |    | 23 |
|     | thaliana*\]         |      |        | protein 5     |    |    |
|     |                     |      |        | \[*H          |    |    |
|     |                     |      |        | emerocallis*, |    |    |
|     |                     |      |        |               |    |    |
|     |                     |      |        | gi:3551954\]; |    |    |
|     |                     |      |        | contains a    |    |    |
|     |                     |      |        | transmembrane |    |    |
|     |                     |      |        | 4 family      |    |    |
|     |                     |      |        | signature     |    |    |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | Ribosomal protein   | gi:  | Yes    | Translation;  | 1  | 1  |
| 60A | L33 \[*Castanea     | 1343 |        | wo            | 20 | e- |
| -02 | sativa*\]           | 0186 | Yes    | und-inducible |    | 26 |
| CF  |                     |      |        |               |    |    |
| 61A |                     | same |        |               |    |    |
| -02 |                     |      |        |               |    |    |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | 14-3-3-like protein | Gi   | Need   | Different     | 1  | 1  |
| 66A | \[*Euphorbia        | :675 | M13R   | allele from   | 67 | e- |
| -02 | esula*\]            | 2903 |        | CR90A-02      |    | 41 |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | Protease-related    | gi:  | Yes    | similar to    | 1  | 1  |
| 72A | \[*A. thaliana*\]   | 1523 |        | intracellular | 33 | e- |
| -02 |                     | 2958 |        | protease      |    | 30 |
|     |                     |      |        | \[Pyrococcus  |    |    |
|     |                     |      |        | horikoshii\]; |    |    |
|     |                     |      |        | ThiJ/PfpI     |    |    |
|     |                     |      |        | family        |    |    |
+-----+---------------------+------+--------+---------------+----+----+
| CF  | AP2-domain          | gi   | Yes    | Probably a    | 92 | 3  |
| 76A | containing protein  | :326 |        | transcription |    | e- |
| -02 | \[*Prunus           | 4767 |        | factor        |    | 18 |
|     | armeniaca\]*        |      |        |               |    |    |
+-----+---------------------+------+--------+---------------+----+----+

Table CR \[C reverse subtraction\]

+-----+-------------------+------+------+------------------+---+----+
| Cl  | Gene Description  | Gene | Both | Function         | S | E  |
| one | \[Source          | Id   | rxns |                  | c | V  |
| Num | organism\]        | enti | gave |                  | o | al |
| ber |                   | fica | same |                  | r | ue |
|     |                   | tion | B    |                  | e | (  |
|     |                   | Nu   | LAST |                  | i | Lo |
|     |                   | mber | res  |                  | n | we |
|     |                   |      | ult? |                  | B | st |
|     |                   |      |      |                  | i | Va |
|     |                   |      |      |                  | t | lu |
|     |                   |      |      |                  | s | e) |
+-----+-------------------+------+------+------------------+---+----+
| C   | PDR-like ABC      | gi:  | Yes  |                  | 1 | 5  |
| R7B | transporter \[*O. | 2536 |      |                  | 0 | e- |
| -02 | sative*\]         | 8833 |      |                  | 5 | 33 |
+-----+-------------------+------+------+------------------+---+----+
| C   | Oxidoreductase    | gi:  | Yes  | At1g68540        | 2 | 7  |
| R9B | family \[*A.      | 1522 |      |                  | 9 | e- |
| -02 | thaliana*\]       | 1433 |      |                  | 8 | 80 |
+-----+-------------------+------+------+------------------+---+----+
| CR  | Similar to blue   | gi   | Yes  | Electron         | 5 | 6  |
| 13A | copper protein    | :929 |      | transfer?        | 7 | e- |
| -01 | \[*A. thaliana*\] | 4157 |      |                  |   | 08 |
+-----+-------------------+------+------+------------------+---+----+
| CR  | Expressed protein | gi:  | N    |                  | 1 | 4  |
| 12B | \[*A. thaliana*\] | 1840 | o^2^ |                  | 0 | e- |
| -02 |                   | 4148 |      |                  | 5 | 22 |
+-----+-------------------+------+------+------------------+---+----+
| CR1 | Class II          | gi:  | Yes  | Defense/stress   | 2 | 7  |
| 4B- | chitinase         | 2014 |      | response         | 8 | e- |
| 02; | \[*Malus x        | 9282 | Yes  |                  | 0 | 75 |
| CR  | domestica*\]      |      |      |                  |   |    |
| 19B |                   | same | Yes  |                  | 2 | 2  |
| -02 |                   |      |      |                  | 8 | e- |
|     |                   | same |      |                  | 5 | 76 |
| CR  |                   |      |      |                  |   |    |
| 85A |                   |      |      |                  | 1 | 8  |
| -02 |                   |      |      |                  | 5 | e- |
|     |                   |      |      |                  | 8 | 71 |
+-----+-------------------+------+------+------------------+---+----+
| CR  | SAM decarboxylase | gi:  | Yes  |                  | 3 | 1  |
| 18B | \[*Malus x        | 2759 |      |                  | 4 | e- |
| -02 | domestica*\]      | 7160 |      |                  | 6 | 94 |
+-----+-------------------+------+------+------------------+---+----+
| CR  | 60S ribosomal     | gi:  | Yes  | Translation;     | 1 | 1  |
| 26B | protein \[*A.     | 1522 |      | subunit L34      | 2 | e- |
| -02 | thaliana*\]       | 3377 |      |                  | 6 | 28 |
+-----+-------------------+------+------+------------------+---+----+
| CR  | Met               | gi   | Yes  | Iron chelation?  | 8 | 2  |
| 30B | allothionein-like | :266 |      |                  | 7 | e- |
| -02 | protein \[*P.     | 2415 |      |                  |   | 16 |
|     | armeniaca*\]      |      |      |                  |   |    |
+-----+-------------------+------+------+------------------+---+----+
| CR  | Mitochondrial     | gi:2 | Yes  | ε subunit        | 9 | 4  |
| 32B | F1-ATPase \[*A.   | 1358 |      |                  | 9 | e- |
| -02 | thaliana*\]       | 6911 | No   | same             |   | 20 |
|     |                   |      |      |                  | 1 |    |
| CR  |                   | same |      |                  | 0 | 3  |
| 55B |                   |      |      |                  | 2 | e- |
| -02 |                   |      |      |                  |   | 21 |
+-----+-------------------+------+------+------------------+---+----+
| CR  | -1,3- glucanase  | gi:  | Yes  | Defense/stress   | 3 | 1  |
| 33B | \[*Fragaria* X    | 2913 |      | response         | 3 | e- |
| -02 | *ananassa*\]\]    | 4843 |      |                  | 7 | 91 |
+-----+-------------------+------+------+------------------+---+----+
| CR  | Unknown           |      | Yes  | Group 1          |   |    |
| 39B |                   |      |      |                  |   |    |
| -02 |                   |      | Yes  | Group 3          |   |    |
|     |                   |      |      |                  |   |    |
| CR  |                   |      | Yes  | Group 1          |   |    |
| 41B |                   |      |      |                  |   |    |
| -02 |                   |      | Yes  | Group 25         |   |    |
|     |                   |      |      |                  |   |    |
| CR  |                   |      | Yes  | Group 1          |   |    |
| 46B |                   |      |      |                  |   |    |
| -02 |                   |      | Yes  | Group 1          |   |    |
|     |                   |      |      |                  |   |    |
| CR  |                   |      | Yes  | Group 1          |   |    |
| 50B |                   |      |      |                  |   |    |
| -02 |                   |      | Yes  | Group 3          |   |    |
|     |                   |      |      |                  |   |    |
| CR  |                   |      | Yes  | Group 25         |   |    |
| 53B |                   |      |      |                  |   |    |
| -02 |                   |      | Yes  | Group 26         |   |    |
|     |                   |      |      |                  |   |    |
| CR  |                   |      |      |                  |   |    |
| 59B |                   |      |      |                  |   |    |
| -02 |                   |      |      |                  |   |    |
|     |                   |      |      |                  |   |    |
| CR  |                   |      |      |                  |   |    |
| 60B |                   |      |      |                  |   |    |
| -02 |                   |      |      |                  |   |    |
|     |                   |      |      |                  |   |    |
| CR  |                   |      |      |                  |   |    |
| 61B |                   |      |      |                  |   |    |
| -02 |                   |      |      |                  |   |    |
|     |                   |      |      |                  |   |    |
| CR  |                   |      |      |                  |   |    |
| 64B |                   |      |      |                  |   |    |
| -02 |                   |      |      |                  |   |    |
|     |                   |      |      |                  |   |    |
| CR  |                   |      |      |                  |   |    |
| 86A |                   |      |      |                  |   |    |
| -02 |                   |      |      |                  |   |    |
+-----+-------------------+------+------+------------------+---+----+
| CR  | Hypothetical      | gi:  | Yes  |                  | 6 | 2  |
| 62B | protein \[*O.     | 3489 |      |                  | 9 | e- |
| -02 | sativa*\]         | 8686 |      |                  |   | 11 |
+-----+-------------------+------+------+------------------+---+----+
| CR  | Ribosomal protein | gi:  | Yes  | Translation      | 2 | 7  |
| 63B | L10A \[*A.        | 1840 |      |                  | 8 | e- |
| -02 | thaniana*\]       | 1451 | ?    |                  | 4 | 76 |
|     |                   |      |      |                  |   |    |
| CR  | Ribosomal protein | BAD2 |      |                  | 2 | 1  |
| 92A | L10a \[*O.        | 8853 |      |                  | 8 | e- |
| -02 | sativa*\]         |      |      |                  | 4 | 75 |
+-----+-------------------+------+------+------------------+---+----+
| CR  | Acetyl            | gi:  | Yes  | Annotated under  | 1 | 3  |
| 65B | CoA-acety         | 1641 |      | gene identifier  | 5 | e- |
| -02 | ltransferase-like | 7952 |      | as truncated     | 2 | 36 |
|     | \[*H*.            |      |      |                  |   |    |
|     | *brasiliensis*\]  |      |      |                  |   |    |
+-----+-------------------+------+------+------------------+---+----+
| CR  | Methionine        | gi   | Yes  | Met metabolism   | 2 | 1  |
| 66A | synthase          | :671 |      |                  | 9 | e- |
| -01 | \[*Coffea         | 6760 |      |                  | 6 | 79 |
|     | arabica*\]        |      |      |                  |   |    |
+-----+-------------------+------+------+------------------+---+----+
| CR  | Ribosomal protein | gi:  | Yes  | Translation;     | 1 | 1  |
| 81B | \[*O. sativa*\]   | 1127 |      | subunit L21      | 9 | e- |
| -02 |                   | 6828 |      |                  | 9 | 50 |
+-----+-------------------+------+------+------------------+---+----+
| CR  | PRU major         | gi:  | Yes  | Defense/Stress   | 1 | 6  |
| 83B | allergen          | 4440 |      | response         | 3 | e- |
| -02 | \[*Prunus         | 9451 |      |                  | 4 | 31 |
|     | avium*\]          |      |      |                  |   |    |
+-----+-------------------+------+------+------------------+---+----+
| CR  | 60S ribosomal     | g    | Yes  | Translation;     | 1 | 3  |
| 86A | protein \[*O.     | i:10 |      | subunit L10      | 5 | e- |
| -01 | sativa*\]         | 0689 |      |                  | 7 | 38 |
+-----+-------------------+------+------+------------------+---+----+
| CR  | Chitinase,        | gi   | Yes  | Defense/Stress   | 1 | 3  |
| 88A | putative Class    | :743 |      | response         | 4 | e- |
| -02 | III \[*Gladiolus  | 4970 |      |                  | 7 | 34 |
|     | gandavensis*\]    |      |      |                  |   |    |
+-----+-------------------+------+------+------------------+---+----+

  ---------- ------------------- ---------- ------- ------------------- ----- -------
  CR90A-02   14-3-3-like Protein AAC15418   Yes     Involved in a       362   4e-99
             \[*G. max*\]                           variety of                
                                                    different cellular        
                                                    processes; binds          
                                                    other proteins            

  ---------- ------------------- ---------- ------- ------------------- ----- -------

Table EF \[E forward subtraction\]

+--------+-------------------+-------+-------+---------------+---+---+
| Clone  | Gene Description  | Gene  | Both  | Function      | S | E |
| Number | \[Source          | Iden  | rxns  |               | c | V |
|        | organism\]        | tific | gave  |               | o | a |
|        |                   | ation | same  |               | r | l |
|        |                   | N     | BLAST |               | e | u |
|        |                   | umber | re    |               | i | e |
|        |                   |       | sult? |               | n | ( |
|        |                   |       |       |               | B | L |
|        |                   |       |       |               | i | o |
|        |                   |       |       |               | t | w |
|        |                   |       |       |               | s | e |
|        |                   |       |       |               |   | s |
|        |                   |       |       |               |   | t |
|        |                   |       |       |               |   | V |
|        |                   |       |       |               |   | a |
|        |                   |       |       |               |   | l |
|        |                   |       |       |               |   | u |
|        |                   |       |       |               |   | e |
|        |                   |       |       |               |   | ) |
+--------+-------------------+-------+-------+---------------+---+---+
| EF5-02 | Thaumatin         | P     | Yes   | Defense; PR   | 2 | 8 |
|        | \[*Prunus         | 83335 |       | protein; same | 6 | e |
| E      | persica*\]        |       | Yes   | as            | 6 | - |
| F13-02 |                   | same  |       |               |   | 7 |
|        |                   |       | No^3^ | AR27A-02,     | 2 | 1 |
| E      |                   | same  |       | AR57B-02,     | 7 |   |
| F68-02 |                   |       |       | AR59B-02, and | 3 | 2 |
|        |                   |       |       | AR72A-02;     |   | e |
|        |                   |       |       | *PpAZ8*       | 3 | - |
|        |                   |       |       |               | 5 | 7 |
|        |                   |       |       |               |   | 2 |
|        |                   |       |       |               |   |   |
|        |                   |       |       |               |   | 0 |
|        |                   |       |       |               |   | . |
|        |                   |       |       |               |   | 3 |
|        |                   |       |       |               |   | 7 |
+--------+-------------------+-------+-------+---------------+---+---+
| E      | ClassIV chitinase | gi:25 | Yes   | D             | 1 | 6 |
| F14-02 | \[*A. thaliana*\] | 97826 |       | efense/Stress | 8 | e |
|        |                   |       | Yes   | response      | 1 | - |
| E      |                   | same  |       |               |   | 4 |
| F42-02 |                   |       |       |               | 1 | 5 |
|        |                   |       |       |               | 7 |   |
|        |                   |       |       |               | 9 | 4 |
|        |                   |       |       |               |   | e |
|        |                   |       |       |               |   | - |
|        |                   |       |       |               |   | 4 |
|        |                   |       |       |               |   | 4 |
+--------+-------------------+-------+-------+---------------+---+---+
| E      | Unknown \[BLASTx, |       |       | Group 27      |   |   |
| F21-02 | tBLASTx and       |       |       |               |   |   |
|        | BLASTn\]          |       |       | Group 1       |   |   |
| E      |                   |       |       |               |   |   |
| F22-02 |                   |       |       | Group 28      |   |   |
|        |                   |       |       |               |   |   |
| E      |                   |       |       |               |   |   |
| F70-02 |                   |       |       |               |   |   |
+--------+-------------------+-------+-------+---------------+---+---+
| E      | 40S ribosomal     | gi:11 | Yes   | Ribosomal     | 1 | 6 |
| F26-02 | protein           | 73223 |       | Protein, S11  | 1 | e |
|        | \[*Glycine max*\] |       |       |               | 7 | - |
|        |                   |       |       |               |   | 2 |
|        |                   |       |       |               |   | 6 |
+--------+-------------------+-------+-------+---------------+---+---+
| E      | Possible          | gi:21 | Yes   | May have      | 6 | 2 |
| F35-02 | transcription     | 04680 |       | nucleotide    | 4 | e |
|        | factor \[*Vicia   |       |       | binding       |   | - |
|        | faba*\]           |       |       | properties    |   | 7 |
|        |                   |       |       | \[match in    |   |   |
|        |                   |       |       | BLASTn\]      |   |   |
+--------+-------------------+-------+-------+---------------+---+---+
| E      | Pat               | g     | Yes   | D             | 2 | 7 |
| F36-02 | hogenesis-related | i:254 |       | efense/Stress | 1 | e |
|        | protein PR-4      | 53225 |       | response;     | 3 | - |
|        | \[*Prunus         |       |       | *PpAz89*      |   | 5 |
|        | persica*\]        |       |       |               |   | 5 |
+--------+-------------------+-------+-------+---------------+---+---+
| E      | Lea-like protein  | gi:4  | Yes   | Similar to    | 8 | 3 |
| F37-02 | \[*Vigna          | 16639 |       | ARG2 which is | 6 | e |
|        | radiata*\]        |       | Yes   | IAA-induced.  |   | - |
| E      |                   | same  |       | Also induced  | 8 | 1 |
| F69-02 |                   |       |       | by heat,      | 6 | 6 |
|        |                   |       |       | ethylene,     |   |   |
|        |                   |       |       | wounding,     |   | 3 |
|        |                   |       |       | tuberization  |   | e |
|        |                   |       |       |               |   | - |
|        |                   |       |       |               |   | 1 |
|        |                   |       |       |               |   | 6 |
+--------+-------------------+-------+-------+---------------+---+---+
| E      | Similar to Tar1p  | g     | Yes   | Similar to    | 4 | 9 |
| F49-02 | \[                | i:232 |       | cotton and    | 9 | e |
|        | *Saccharomyces*\] | 70399 |       | rose ESTs and |   | - |
|        |                   |       |       | a rice        |   | 6 |
|        |                   |       |       | genomic clone |   |   |
+--------+-------------------+-------+-------+---------------+---+---+
| E      | Similar to pea    |       | Yes   |               |   |   |
| F52-02 | chloroplast       |       |       |               |   |   |
|        | import protein    |       |       |               |   |   |
|        | \[*Pisum          |       |       |               |   |   |
|        | sativum*\]        |       |       |               |   |   |
+--------+-------------------+-------+-------+---------------+---+---+
| E      | Expressed protein | AJ8   | No^1^ | EST from      | 3 | 1 |
| F54-02 | \[*P. persica*\]  | 26928 |       | p             | 3 | e |
|        |                   |       |       | reclimacteric | 3 | - |
|        |                   |       |       | to            |   | 8 |
|        |                   |       |       | climacteric   |   | 8 |
|        |                   |       |       | fruit         |   |   |
|        |                   |       |       | mesocarp      |   |   |
+--------+-------------------+-------+-------+---------------+---+---+
| E      | Phase-change      | gi:69 | Yes   | Not in GDR    | 5 | 7 |
| F59-02 | protein           | 67040 |       | peach; match  | 6 | e |
|        | \[*Quercus        |       |       | in BLASTn,    |   | - |
|        | robur*\]          |       |       | not BLASTx    |   | 5 |
+--------+-------------------+-------+-------+---------------+---+---+
| E      | Pollen coat-like  | g     | Yes   | Note: also    | 8 | 2 |
| F63-02 | protein \[*A.     | i:215 |       | somewhat      | 9 | e |
|        | thaliana*\]       | 93307 |       | similar to    |   | - |
|        |                   |       |       | kin1          |   | 1 |
|        |                   |       |       |               |   | 7 |
+--------+-------------------+-------+-------+---------------+---+---+
| E      | met               | BAA   | Yes   |               |   | 5 |
| F64-02 | allothionein-like | 96449 |       |               |   | e |
|        | protein (*Pyrus   |       |       |               |   | - |
|        | pyrifolia*)       |       |       |               |   | 7 |
+--------+-------------------+-------+-------+---------------+---+---+
| E      | Dehydrin          | gi:95 | Yes   | Stress        | 1 | 4 |
| F65-02 | \[*Prunus         | 88684 |       | responses     | 0 | e |
|        | persica*\]        |       |       |               | 1 | - |
|        |                   |       |       |               |   | 2 |
|        |                   |       |       |               |   | 1 |
+--------+-------------------+-------+-------+---------------+---+---+
| E      |                   |       |       |               |   |   |
| F66-02 |                   |       |       |               |   |   |
+--------+-------------------+-------+-------+---------------+---+---+
| E      | Possible WD-40    |       | Yes   | Guanine       |   | 3 |
| F67-02 | repeat protein    |       |       | nucleotide    |   | e |
|        | \[*A. thaliana*\] |       |       | binding       |   | - |
|        |                   |       |       |               |   | 4 |
|        |                   |       |       |               |   | 9 |
+--------+-------------------+-------+-------+---------------+---+---+

Table ER \[E reverse subtraction\]

+--------+--------------------+-------+-----+----------------+---+----+
| Clone  | Gene Description   | Gene  | B   | Function       | S | E  |
| Number | \[Source           | Iden  | oth |                | c | V  |
|        | organism\]         | tific | r   |                | o | al |
|        |                    | ation | xns |                | r | ue |
|        |                    | N     | g   |                | e | (  |
|        |                    | umber | ave |                | i | Lo |
|        |                    |       | s   |                | n | we |
|        |                    |       | ame |                | B | st |
|        |                    |       | BL  |                | i | Va |
|        |                    |       | AST |                | t | lu |
|        |                    |       | r   |                | s | e) |
|        |                    |       | esu |                |   |    |
|        |                    |       | lt? |                |   |    |
+--------+--------------------+-------+-----+----------------+---+----+
| > E    | Organ Specific     | gi:1  | Yes | Transposase is | 6 | 3  |
| R1A-02 | Protein            | 29248 |     | on complement  | 6 | e- |
| >      |                    |       | Yes | strand in      |   | 10 |
| > E    | \[contains 3' UTR  | g     |     | 3'UTR \[297;   | 8 |    |
| R2B-02 | transposase        | i:484 | Yes | 1e-79\]        | 2 | 8  |
| >      | similar to rice\]  | 26429 |     |                |   | e- |
| > E    |                    |       | Yes | Same as        | 3 | 15 |
| R3B-02 |                    | gi:89 |     | ER2B-02        | 8 |    |
| >      |                    | 19075 | Yes |                |   | 0  |
| > E    |                    |       |     |                | 1 | .0 |
| R5B-02 |                    | g     | Yes |                | 0 | 75 |
| >      |                    | i:484 |     |                | 3 |    |
| > E    |                    | 26429 | Yes |                |   | 6  |
| R8B-02 |                    |       |     |                | 1 | e- |
| >      |                    | g     | Yes |                | 0 | 27 |
| > E    |                    | i:484 |     |                | 3 |    |
| R9B-02 |                    | 26429 | Yes |                |   | 3  |
| >      |                    |       |     |                | 1 | e- |
| > ER   |                    | g     | Yes |                | 0 | 21 |
| 13B-02 |                    | i:484 |     |                | 3 |    |
| >      |                    | 26429 | Yes |                |   | 3  |
| > ER   |                    |       |     |                | 4 | e- |
| 15A-02 |                    | gi:1  | Yes |                | 8 | 21 |
| >      |                    | 29248 |     |                |   |    |
| > ER   |                    |       | Yes |                | 3 | 5  |
| 24B-02 |                    | g     |     |                | 9 | e- |
| >      |                    | i:484 | Yes |                |   | 05 |
| > ER   |                    | 26429 |     |                | 5 |    |
| 37B-02 |                    |       | Yes |                | 5 | 0  |
| >      |                    | g     |     |                |   | .0 |
| > ER   |                    | i:484 | Yes |                | 5 | 44 |
| 38B-02 |                    | 26429 |     |                | 7 |    |
| >      |                    |       | Yes |                |   | 5  |
| > ER   |                    | gi:1  |     |                | 1 | e- |
| 40B-02 |                    | 29248 | Yes |                | 2 | 07 |
| >      |                    |       |     |                | 8 |    |
| > ER   |                    | g     | Yes |                |   | 2  |
| 42A-02 |                    | i:484 |     |                | 7 | e- |
| >      |                    | 26429 | Yes |                | 5 | 07 |
| > ER   |                    |       |     |                |   |    |
| 43B-02 |                    | g     |     |                | 7 | 1  |
| >      |                    | i:484 |     |                | 6 | e- |
| > ER   |                    | 26429 |     |                |   | 28 |
| 50A-02 |                    |       |     |                | 8 |    |
| >      |                    | g     |     |                | 6 | 5  |
| > ER   |                    | i:484 |     |                |   | e- |
| 68A-02 |                    | 26429 |     |                | 5 | 13 |
| >      |                    |       |     |                | 5 |    |
| > ER   |                    | g     |     |                |   | 4  |
| 73B-02 |                    | i:484 |     |                | 1 | e- |
| >      |                    | 26429 |     |                | 1 | 13 |
| > ER   |                    |       |     |                | 2 |    |
| 79A-02 |                    | gi:89 |     |                |   | 3  |
| >      |                    | 19075 |     |                | 9 | e- |
| > ER   |                    |       |     |                | 1 | 16 |
| 85A-02 |                    | g     |     |                |   |    |
| >      |                    | i:484 |     |                | 6 | 4  |
| > ER1  |                    | 26429 |     |                | 5 | e- |
| 00A-02 |                    |       |     |                |   | 07 |
|        |                    | g     |     |                | 3 |    |
|        |                    | i:484 |     |                | 8 | 6  |
|        |                    | 26429 |     |                |   | e- |
|        |                    |       |     |                | 4 | 24 |
|        |                    | gi:1  |     |                | 0 |    |
|        |                    | 29248 |     |                |   | 2  |
|        |                    |       |     |                |   | e- |
|        |                    | gi:89 |     |                |   | 17 |
|        |                    | 19075 |     |                |   |    |
|        |                    |       |     |                |   | 1  |
|        |                    | gi:1  |     |                |   | e- |
|        |                    | 29248 |     |                |   | 09 |
|        |                    |       |     |                |   |    |
|        |                    |       |     |                |   | 0. |
|        |                    |       |     |                |   | 08 |
|        |                    |       |     |                |   |    |
|        |                    |       |     |                |   | 0  |
|        |                    |       |     |                |   | .0 |
|        |                    |       |     |                |   | 15 |
+--------+--------------------+-------+-----+----------------+---+----+
| > E    | ADP-ribosylation   | g     | Yes |                | 3 | 8  |
| R2A-02 | factor \[*Oryza    | i:321 |     |                | 1 | e- |
| >      | sativa*\]          | 29330 | Yes |                | 0 | 84 |
| > ER   |                    |       |     |                |   |    |
| 53A-02 | Same \[*Vigna      | g     | Yes |                | 3 | 3  |
| >      | unguiculata*\]     | i:111 |     |                | 0 | e- |
| > ER   |                    | 31026 |     |                | 8 | 83 |
| 61B-02 | Similar to         |       |     |                |   |    |
|        | ADP-ribosylation   | g     |     |                | 1 | 4  |
|        | factor \[*O.       | i:321 |     |                | 0 | e- |
|        | sativa*\]          | 29330 |     |                | 8 | 23 |
+--------+--------------------+-------+-----+----------------+---+----+
| > E    | Major latex        | gi:24 | No  | Ri             | 9 | 3  |
| R3A-02 | protein            | 65015 | ^3^ | pening-induced | 2 | e- |
|        | \[*Fragaria        |       |     |                |   | 18 |
|        | vesca*\]           |       |     |                |   |    |
+--------+--------------------+-------+-----+----------------+---+----+
| > E    | Hypothetical       | g     | Yes | p85RF          | 6 | 8  |
| R4B-02 | protein \[*A.      | i:215 |     |                | 5 | e- |
| >      | thaliana*\]        | 93416 | Yes | Could be a     |   | 23 |
| > E    |                    |       |     | gluco          | 1 |    |
| R5A-02 | Hypothetical       | g     | Yes | syltransferase | 1 | 2  |
| >      | protein \[*Prunus  | i:113 |     | \[see BLAST    | 2 | e- |
| > ER   | armeniaca*\]       | 61253 | Yes | result\]       |   | 24 |
| 54A-02 |                    |       |     |                | 9 |    |
| >      | Hypothetical       | g     | Yes | Other side     | 0 | 1  |
| > ER   | protein \[*A.      | i:255 |     | matches barley |   | e- |
| 97A-02 | thaliana*\]        | 18710 | No  | chlor prot     | 9 | 17 |
| >      |                    |       | ^1^ |                | 0 |    |
| > ER   | same               | same  |     |                |   | 1  |
| 55A-02 |                    |       |     |                | 9 | e- |
| >      | Hypothetical       | g     |     |                | 7 | 17 |
| > ER   | proteins \[*A.     | i:215 |     |                |   |    |
| 99A-02 | thaliana*\]        | 53568 |     |                | s | 2  |
|        |                    |       |     |                | a | e- |
|        | Hypothetical       | gi:72 |     |                | m | 10 |
|        | protein            | 70044 |     |                | e |    |
|        | \[*Spinacia        |       |     |                |   | sa |
|        | oleracea*\]        | gi:74 |     |                | 7 | me |
|        |                    | 84687 |     |                | 0 |    |
|        |                    |       |     |                |   | 2  |
|        |                    |       |     |                |   | e- |
|        |                    |       |     |                |   | 11 |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | Putative           | BAB   | No  | Different from | 7 | 9  |
| 94A-02 | sen                | 33421 | ^1^ | CF59A-02       | 1 | e- |
|        | escence-associated |       |     |                |   | 12 |
|        | protein \[*Pisum   |       |     |                |   |    |
|        | sativum*\]         |       |     |                |   |    |
+--------+--------------------+-------+-----+----------------+---+----+
| > E    | Tubulin alpha-1    | g     | Yes |                | 3 | 4  |
| R6B-02 | chain \[*Rosa      | i:150 |     |                | 3 | e- |
| >      | hybrida*\]         | 29368 | Yes |                | 2 | 90 |
| > ER   |                    |       |     |                |   |    |
| 71A-02 |                    | same  |     |                | 2 | 2  |
|        |                    |       |     |                | 3 | e- |
|        |                    |       |     |                | 3 | 60 |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | Unknown            |       | Yes | Group 29       |   |    |
| 22A-02 |                    |       |     |                |   |    |
| >      |                    |       | Yes | Group 30       |   |    |
| > ER   |                    |       |     |                |   |    |
| 28A-02 |                    |       | Yes | Group 31       |   |    |
| >      |                    |       |     |                |   |    |
| > ER   |                    |       | No  | Group 32       |   |    |
| 33A-02 |                    |       | ^2^ |                |   |    |
| >      |                    |       |     | Group 33       |   |    |
| > ER   |                    |       | No  |                |   |    |
| 41B-02 |                    |       | ^3^ | Group 34       |   |    |
| >      |                    |       |     |                |   |    |
| > ER   |                    |       | Yes | Group 35       |   |    |
| 61A-02 |                    |       |     |                |   |    |
| >      |                    |       | Yes | Group 36       |   |    |
| > ER   |                    |       |     |                |   |    |
| 87A-02 |                    |       | Yes | Group 35       |   |    |
| >      |                    |       |     |                |   |    |
| > ER   |                    |       |     |                |   |    |
| 88A-02 |                    |       |     |                |   |    |
| >      |                    |       |     |                |   |    |
| > ER   |                    |       |     |                |   |    |
| 91A-02 |                    |       |     |                |   |    |
| >      |                    |       |     |                |   |    |
| > ER   |                    |       |     |                |   |    |
| 96A-02 |                    |       |     |                |   |    |
+--------+--------------------+-------+-----+----------------+---+----+
| > E    | DNA binding        | gi:74 | Yes | Similar to     | 1 | 2  |
| R8A-02 | protein \[*N.      | 89115 |     | EREBP-4        | 4 | e- |
| >      | tabacum*\]         |       | Yes |                | 7 | 34 |
| > ER   |                    | same  |     |                |   |    |
| 59A-02 |                    |       |     |                | 1 | 6  |
|        |                    |       |     |                | 4 | e- |
|        |                    |       |     |                | 9 | 35 |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | Ubiquitin-specific | g     | Yes | Targeted       | 2 | 2  |
| 19B-02 | protease 14 \[*A.  | i:119 |     | protein        | 0 | e- |
|        | thaliana*\]        | 93473 |     | turnover;      | 7 | 52 |
|        |                    |       |     | various        |   |    |
|        |                    |       |     | processes      |   |    |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | caffeoyl-CoA       | gi:25 | Yes | Lignin         | 3 | 2  |
| 20A-02 | 3-O                | 11737 |     | biosynthesis   | 2 | e- |
|        | -methyltransferase |       |     |                | 2 | 87 |
|        | 5 \[*Nicotiana     |       |     |                |   |    |
|        | tabacum*\]         |       |     |                |   |    |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | Expressed protein  | g     | Yes | Pfam profile   | 2 | 3  |
| 20B-02 | \[*A. thaliana*\]  | i:184 |     | PF05078: dom:  | 0 | e- |
| >      |                    | 03044 | Yes | DUF679;        | 5 | 52 |
| > ER   | Expressed protein  |       |     | At3g21550      |   |    |
| 63A-02 | \[*A. thaliana*\]  | g     |     |                | 9 | 2  |
|        |                    | i:184 |     | At4g31410      | 7 | e- |
|        |                    | 17801 |     |                |   | 19 |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | Actin \[*G.        | g     | Yes |                | 2 | 9  |
| 30A-02 | hirsutum*\]        | i:321 |     |                | 7 | e- |
|        |                    | 86906 |     |                | 0 | 72 |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | h                  | gi:60 | Yes | does not       | 9 | 6  |
| 35A-02 | omeodomain-leucine | 91551 |     | overlap        | 4 | e- |
|        | zipper protein 56  |       |     | homeobox       |   | 18 |
|        | \[*Glycine max*\]  |       |     | domain         |   |    |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | Pe                 | g     | Yes |                | 2 | 3  |
| 35B-02 | ctinacetylesterase | i:101 |     |                | 4 | e- |
|        | \[*A. thaliana*\]  | 76854 |     |                | 4 | 64 |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | Putative RING-H2   | g     | Yes | Similar to     | 6 | 9  |
| 37A-02 | finger protein     | i:264 |     | RHF2a;         | 8 | e- |
|        | \[*A. thaliana*\]  | 51710 |     | component of   |   | 11 |
|        |                    |       |     | E3 ligase      |   |    |
|        |                    |       |     | \[SCF          |   |    |
|        |                    |       |     | complex\];     |   |    |
|        |                    |       |     | At5g22000      |   |    |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | G                  | gi:13 | Yes | R              | 1 | 8  |
| 43A-02 | ibberellin-induced | 51018 |     | oot-associated | 6 | e- |
| >      | protein \[*L.      |       | No  |                | 2 | 39 |
| > ER   | esculentum*\]      | same  | ^1^ |                |   |    |
| 48B-02 |                    |       |     |                | 1 | 1  |
| >      | same               | same  | No  |                | 5 | e- |
| > ER   |                    |       | ^1^ |                | 6 | 37 |
| 60B-02 | same               |       |     |                |   |    |
|        |                    |       |     |                | 1 | 5  |
|        |                    |       |     |                | 4 | e- |
|        |                    |       |     |                | 8 | 35 |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | *Phi-1*-like \[*A. | g     | Yes | Phos           | 1 | 3  |
| 46B-02 | thaliana*\]        | i:152 |     | phate-induced; | 3 | e- |
| >      |                    | 42118 | Yes | Pfam profile   | 8 | 32 |
| > ER   | *Phi-1* \[*N.      |       |     | PF04674;       |   |    |
| 58A-02 | tabacum*\]         | gi:37 |     | At5g51550      | 4 | 1e |
|        |                    | 59184 |     |                | 1 | -1 |
|        |                    |       |     |                | 9 | 16 |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | Upstream binding   | gi:73 | Yes | Possible       | 3 | 1  |
| 47A-02 | factor \[*Mus      | 05605 |     | transcription  | 4 | .1 |
|        | musculus*\]        |       |     | factor; match  |   |    |
|        |                    |       |     | is not very    |   |    |
|        |                    |       |     | good           |   |    |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | Actin              | g     | Yes |                | 2 | 6  |
| 57B-02 | depolymerizing     | i:173 |     |                | 1 | e- |
|        | factor 2 \[*P.     | 66765 |     |                | 9 | 56 |
|        | hybrida*\]         |       |     |                |   |    |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | Phloem-specific    | gi:21 | Yes |                | 5 | 1e |
| 58B-02 | protein \[*Vicia   | 29902 |     |                | 0 | -5 |
|        | faba*\]            |       |     |                |   |    |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | Mannos             | gi:65 | Yes |                | 3 | 5  |
| 67A-02 | yl-oligosaccharide | 52504 |     |                | 2 | .3 |
|        | 1,2-α -mannosidase |       |     |                |   |    |
|        | \[*G. max*\]       |       |     |                |   |    |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | putative permease  | g     | Yes |                | 1 | 8  |
| 76A-02 | 1 \[*A.            | i:186 |     |                | 8 | e- |
|        | thaliana*\]        | 43260 |     |                | 3 | 46 |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | pe                 | g     | Yes |                | 2 | 5  |
| 82A-02 | ctinacetylesterase | i:101 |     |                | 8 | e- |
|        | \[*Arabidopsis     | 76854 |     |                | 1 | 75 |
|        | thaliana*\]        |       |     |                |   |    |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | Translationally    | gi:5  | Yes | Has high       | 1 | 7  |
| 92A-02 | controlled tumor   | 49063 |     | homology to    | 0 | e- |
|        | protein homolog    |       |     | human and      | 7 | 23 |
|        | (TCTP) \[*O.       |       |     | yeast;         |   |    |
|        | sativa*\]          |       |     | housekeeping   |   |    |
|        |                    |       |     | function?      |   |    |
+--------+--------------------+-------+-----+----------------+---+----+
| > ER   | Possible           | g     | Yes | Similar to     | 1 | 4  |
| 93A-02 | d                  | i:184 |     | ERD3; may have | 9 | e- |
|        | ehydration-induced | 14198 |     | ankyrin        | 0 | 48 |
|        | protein            |       |     | repeats        |   |    |
|        | \[*Arabidopsis     |       |     |                |   |    |
|        | thaliana*\]        |       |     |                |   |    |
+--------+--------------------+-------+-----+----------------+---+----+