ORE1 binding site gene transcriptions
"The Arabidopsis oresara1-1 (ore1-1, oresara means long-living in Korean) mutant was initially identified as a delayed leaf senescence mutant (4)."
"ORE1, which is a NAC (NAM, ATAF, and CUC) transcription factor, positively regulates aging-induced cell death in Arabidopsis leaves. ORE1 expression is up-regulated concurrently with leaf aging by EIN2 but is negatively regulated by miR164. miR164 expression gradually decreases with aging through negative regulation by EIN2, which leads to the elaborate up-regulation of ORE1 expression. However, EIN2 still contributes to aging-induced cell death in the absence of ORE1. The trifurcate feed-forward pathway involving ORE1, miR164, and EIN2 provides a highly robust regulation to ensure that aging induces cell death in Arabidopsis leaves."
"Nitrogen deficiency (N) in plants triggers leaf senescence which is regulated by the transcription factor ORE1."
"As a transcription factor, ORE1 was reported to bind to consensus DNA sequences of GTN{5,6}AC or TCGT."

# Human genes

# Consensus sequences
Consensus sequences are 5'-(A/C/G)(A/C)GT(A/G)N5,6(C/T)AC(A/G)-3' or 5'-T(A/G/T)(A/G)CGT(A/G)(A/C/T)(A/G/T)-3'.

# ORE1 (Matallana) samplings
Copying CAGTGCAGTGT in "F" yields none between ZSCAN22 and A1BG and none between ZNF497 and A1BG as can be found by the computer programs.
For the Basic programs testing consensus sequence (A/C/G)(A/C)GT(A/G)N5,6(C/T)AC(A/G) (starting with SuccessablesORE.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:
- negative strand, negative direction, looking for (A/C/G)(A/C)GT(A/G)NNNNN(C/T)AC(A/G), 2, GCGTAGAAGACACA at 3558, AAGTAGTTTCTACG at 2895.
- negative strand, negative direction, looking for (A/C/G)(A/C)GT(A/G)NNNNNN(C/T)AC(A/G), 0.
- positive strand, negative direction, looking for (A/C/G)(A/C)GT(A/G)NNNNN(C/T)AC(A/G), 1, CAGTGGATCACACG at 530.
- positive strand, negative direction, looking for (A/C/G)(A/C)GT(A/G)NNNNNN(C/T)AC(A/G), 0.
- positive strand, positive direction, looking for (A/C/G)(A/C)GT(A/G)NNNNN(C/T)AC(A/G), 1, GCGTAGAGGGTACA at 3336.
- positive strand, positive direction, looking for (A/C/G)(A/C)GT(A/G)NNNNNN(C/T)AC(A/G), 0.
- negative strand, positive direction, looking for (A/C/G)(A/C)GT(A/G)NNNNN(C/T)AC(A/G), 0.
- negative strand, positive direction, looking for (A/C/G)(A/C)GT(A/G)NNNNNN(C/T)AC(A/G), 1, CCGTGGTGGGTCACA at 3822.
- complement, negative strand, negative direction, looking for (C/G/T)(G/T)CA(C/T)NNNNN(A/G)TG(C/T), 1, GTCACCTAGTGTGC at 530.
- complement, negative strand, negative direction, looking for (C/G/T)(G/T)CA(C/T)NNNNNN(A/G)TG(C/T), 0.
- complement, positive strand, negative direction, looking for (C/G/T)(G/T)CA(C/T)NNNNN(A/G)TG(C/T), 2, CGCATCTTCTGTGT at 3558, TTCATCAAAGATGC at 2895.
- complement, positive strand, negative direction, looking for (C/G/T)(G/T)CA(C/T)NNNNNN(A/G)TG(C/T), 0.
- complement, positive strand, positive direction, looking for (C/G/T)(G/T)CA(C/T)NNNNN(A/G)TG(C/T), 0.
- complement, positive strand, positive direction, looking for (C/G/T)(G/T)CA(C/T)NNNNNN(A/G)TG(C/T), 1, GGCACCACCCAGTGT at 3822.
- complement, negative strand, positive direction, looking for (C/G/T)(G/T)CA(C/T)NNNNN(A/G)TG(C/T), 1, CGCATCTCCCATGT at 3336.
- complement, negative strand, positive direction, looking for (C/G/T)(G/T)CA(C/T)NNNNNN(A/G)TG(C/T), 0.
- inverse complement, negative strand, negative direction, looking for (C/T)GT(A/G)NNNNN(C/T)AC(G/T)(C/G/T), 1, CGTGTATTATACTC at 275.
- inverse complement, negative strand, negative direction, looking for (C/T)GT(A/G)NNNNNN(C/T)AC(G/T)(C/G/T), 1, ACATCCTCAAATGAA at 1581.
- inverse complement, positive strand, negative direction, looking for (C/T)GT(A/G)NNNNN(C/T)AC(G/T)(C/G/T), 0.
- inverse complement, positive strand, negative direction, looking for (C/T)GT(A/G)NNNNNN(C/T)AC(G/T)(C/G/T), 0.
- inverse complement, positive strand, positive direction, looking for (C/T)GT(A/G)NNNNN(C/T)AC(G/T)(C/G/T), 0.
- inverse complement, positive strand, positive direction, looking for (C/T)GT(A/G)NNNNNN(C/T)AC(G/T)(C/G/T), 2, GCACCGGCGCGTGCA at 1218, GCATCGGCGCGTGCA at 546.
- inverse complement, negative strand, positive direction, looking for (C/T)GT(A/G)NNNNN(C/T)AC(G/T)(C/G/T), 0.
- inverse complement, negative strand, positive direction, looking for (C/T)GT(A/G)NNNNNN(C/T)AC(G/T)(C/G/T), 0.
- inverse negative strand, negative direction, looking for (A/G)CA(C/T)NNNNN(A/G)TG(A/C)(A/C/G), 0.
- inverse negative strand, negative direction, looking for (A/G)CA(C/T)NNNNNN(A/G)TG(A/C)(A/C/G), 0.
- inverse positive strand, negative direction, looking for (A/G)CA(C/T)NNNNN(A/G)TG(A/C)(A/C/G), 1, GCACATAATATGAG at 275.
- inverse positive strand, negative direction, looking for (A/G)CA(C/T)NNNNNN(A/G)TG(A/C)(A/C/G), 1, ACATCCTCAAATGAA at 1581.
- inverse positive strand, positive direction, looking for (A/G)CA(C/T)NNNNN(A/G)TG(A/C)(A/C/G), 0.
- inverse positive strand, positive direction, looking for (A/G)CA(C/T)NNNNNN(A/G)TG(A/C)(A/C/G), 0.
- inverse negative strand, positive direction, looking for (A/G)CA(C/T)NNNNN(A/G)TG(A/C)(A/C/G), 0.
- inverse negative strand, positive direction, looking for (A/G)CA(C/T)NNNNNN(A/G)TG(A/C)(A/C/G), 2, GCACCGGCGCGTGCA at 1218, GCATCGGCGCGTGCA at 546.

## ORE1 (Matallana) (4560-2846) UTRs
- Negative strand, negative direction: GCGTAGAAGACACA at 3558, AAGTAGTTTCTACG at 2895.

## ORE1 (Matallana) negative direction (2596-1) distal promoters
- Negative strand, negative direction: CGTGTATTATACTC at 275.
- Negative strand, negative direction: ACATCCTCAAATGAA at 1581.
- Positive strand, negative direction: CAGTGGATCACACG at 530.

## ORE1 (Matallana) positive direction (4050-1) distal promoters
- Negative strand, positive direction: CCGTGGTGGGTCACA at 3822.
- Positive strand, positive direction: GCGTAGAGGGTACA at 3336.
- Positive strand, positive direction: GCACCGGCGCGTGCA at 1218, GCATCGGCGCGTGCA at 546.

# ORE14 (Matallana) random dataset samplings
- ORE14r0: 0.
- ORE14r1: 1, CCGTATCGCTCACA at 2696.
- ORE14r2: 0.
- ORE14r3: 0.
- ORE14r4: 1, CAGTAAGGTGCACA at 2197.
- ORE14r5: 2, GAGTAGGTCGCACA at 3416, GCGTATGTTTTACG at 2077.
- ORE14r6: 1, CAGTACCCGATACG at 3218.
- ORE14r7: 0.
- ORE14r8: 0.
- ORE14r9: 0.
- ORE14r0ci: 0.
- ORE14r1ci: 1, CGTAAAGGCCACTG at 918.
- ORE14r2ci: 0.
- ORE14r3ci: 1, CGTAACGCGTACTT at 2222.
- ORE14r4ci: 0.
- ORE14r5ci: 1, CGTATGTTTTACGG at 2078.
- ORE14r6ci: 0.
- ORE14r7ci: 1, TGTGTCTTCTACTT at 1363.
- ORE14r8ci: 1, TGTACGTTTTACTC at 2157.
- ORE14r9ci: 1, TGTAGCCTACACGC at 2116.

# ORE15 (Matallana) random dataset samplings
- ORE15r0: 1, GAGTGTCAATCCACA at 1163.
- ORE15r1: 0.
- ORE15r2: 0.
- ORE15r3: 0.
- ORE15r4: 0.
- ORE15r5: 0.
- ORE15r6: 1, AAGTAAACCCGCACG at 2193.
- ORE15r7: 0.
- ORE15r8: 0.
- ORE15r9: 0.
- ORE15r0ci: 1, CGTGGTCAGATACTC at 852.
- ORE15r1ci: 1, TGTAGGGAGCCACGT at 3298.
- ORE15r2ci: 0.
- ORE15r3ci: 0.
- ORE15r4ci: 0.
- ORE15r5ci: 0.
- ORE15r6ci: 0.
- ORE15r7ci: 0.
- ORE15r8ci: 1, CGTATAACTGTACGT at 2150.
- ORE15r9ci: 1, CGTGCATACTCACTT at 1198.

## ORE1r arbitrary (evens) (4560-2846) UTRs
- ORE14r6: CAGTACCCGATACG at 3218.

## ORE1r alternate (odds) (4560-2846) UTRs
- ORE14r1: CCGTATCGCTCACA at 2696.
- ORE14r5: GAGTAGGTCGCACA at 3416.
- ORE15r1ci: TGTAGGGAGCCACGT at 3298.

## ORE1r alternate negative direction (odds) (2811-2596) proximal promoters
- ORE14r1: CCGTATCGCTCACA at 2696.

## ORE1r arbitrary negative direction (evens) (2596-1) distal promoters
- ORE14r4: CAGTAAGGTGCACA at 2197.
- ORE14r8ci: TGTACGTTTTACTC at 2157.
- ORE15r0: GAGTGTCAATCCACA at 1163.
- ORE15r6: AAGTAAACCCGCACG at 2193.
- ORE15r0ci: CGTGGTCAGATACTC at 852.
- ORE15r8ci: CGTATAACTGTACGT at 2150.

## ORE1r alternate negative direction (odds) (2596-1) distal promoters
- ORE14r15: GCGTATGTTTTACG at 2077.
- ORE14r1ci: CGTAAAGGCCACTG at 918.
- ORE14r3ci: CGTAACGCGTACTT at 2222.
- ORE14r5ci: CGTATGTTTTACGG at 2078.
- ORE14r7ci: TGTGTCTTCTACTT at 1363.
- ORE15r9ci: CGTGCATACTCACTT at 1198.

## ORE1r arbitrary positive direction (odds) (4050-1) distal promoters
- ORE14r1: CCGTATCGCTCACA at 2696.
- ORE14r5: GAGTAGGTCGCACA at 3416, GCGTATGTTTTACG at 2077.
- ORE14r1ci: CGTAAAGGCCACTG at 918.
- ORE14r3ci: CGTAACGCGTACTT at 2222.
- ORE14r5ci: CGTATGTTTTACGG at 2078.
- ORE14r7ci: TGTGTCTTCTACTT at 1363.
- ORE14r9ci: TGTAGCCTACACGC at 2116.
- ORE15r1ci: TGTAGGGAGCCACGT at 3298.
- ORE15r9ci: CGTGCATACTCACTT at 1198.

## ORE1r alternate positive direction (evens) (4050-1) distal promoters
- ORE14r4: CAGTAAGGTGCACA at 2197.
- ORE14r6: CAGTACCCGATACG at 3218.
- ORE14r8ci: TGTACGTTTTACTC at 2157.
- ORE14r9ci: TGTAGCCTACACGC at 2116.
- ORE15r0: GAGTGTCAATCCACA at 1163.
- ORE15r6: AAGTAAACCCGCACG at 2193.
- ORE15r0ci: CGTGGTCAGATACTC at 852.
- ORE15r8ci: CGTATAACTGTACGT at 2150.

# ORE1 (Matallana) analysis and results
As a transcription factor, ORE1 was reported to bind to consensus DNA sequences of GTN{5,6}AC.
Comparison:
The occurrences of real ORE1 (Matallana)s are greater than the randoms. This suggests that the real ORE1 (Matallana)s are likely active or activable.

# ORE1 (Olsen) samplings
Copying 5'-TTACGTG-3' in "F" yields none between ZSCAN22 and A1BG and none between ZNF497 and A1BG as can be found by the computer programs.
Copying 5'-TGACGTGAG-3' in "F" yields three between ZSCAN22 and A1BG and none between ZNF497 and A1BG as can be found by the computer programs.
Copying 5'-TAGCGT-3' in "F" yields none between ZSCAN22 and A1BG and none between ZNF497 and A1BG as can be found by the computer programs.
Copying 5'-TAACGTGAG-3' in "F" yields two between ZSCAN22 and A1BG and none between ZNF497 and A1BG as can be found by the computer programs.
For the Basic programs testing consensus sequence T(A/G/T)(A/G)CGT(A/G)(A/C/T)(A/G/T) (starting with SuccessablesORE2.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:
- negative strand, negative direction, looking for T(A/G/T)(A/G)CGT(A/G)(A/C/T)(A/G/T), 6, TGACGTGAG at 4341, TAACGTGAG at 3290, TGACGTGAG at 2427, TGACGTGAG at 2001, TAACGTGTT at 1720, TAACGTGAG at 1348.
- positive strand, negative direction, looking for T(A/G/T)(A/G)CGT(A/G)(A/C/T)(A/G/T), 0.
- positive strand, positive direction, looking for T(A/G/T)(A/G)CGT(A/G)(A/C/T)(A/G/T), 3, TTACGTAAG at 3073, TGACGTAAG at 2207, TGGCGTACG at 2154.
- negative strand, positive direction, looking for T(A/G/T)(A/G)CGT(A/G)(A/C/T)(A/G/T), 0.
- complement, negative strand, negative direction, looking for A(A/C/T)(C/T)GCA(C/T)(A/G/T)(A/C/T), 0.
- complement, positive strand, negative direction, looking for A(A/C/T)(C/T)GCA(C/T)(A/G/T)(A/C/T), 6, ACTGCACTC at 4341, ATTGCACTC at 3290, ACTGCACTC at 2427, ACTGCACTC at 2001, ATTGCACAA at 1720, ATTGCACTC at 1348.
- complement, positive strand, positive direction, looking for A(A/C/T)(C/T)GCA(C/T)(A/G/T)(A/C/T), 0.
- complement, negative strand, positive direction, looking for A(A/C/T)(C/T)GCA(C/T)(A/G/T)(A/C/T), 3, AATGCATTC at 3073, ACTGCATTC at 2207, ACCGCATGC at 2154.
- inverse complement, negative strand, negative direction, looking for (A/C/T)(A/G/T)(C/T)ACG(C/T)(A/C/T)A, 1, CTCACGTCA at 1472.
- inverse complement, positive strand, negative direction, looking for (A/C/T)(A/G/T)(C/T)ACG(C/T)(A/C/T)A, 4, ATCACGCCA at 3282, CTCACGCCA at 2209, ATCACGCCA at 1993, CACACGTAA at 533.
- inverse complement, positive strand, positive direction, looking for (A/C/T)(A/G/T)(C/T)ACG(C/T)(A/C/T)A, 3, TACACGTCA at 3962, CTTACGTAA at 3072, CTCACGTCA at 2328.
- inverse complement, negative strand, positive direction, looking for (A/C/T)(A/G/T)(C/T)ACG(C/T)(A/C/T)A, 0.
- inverse negative strand, negative direction, looking for (A/G/T)(A/C/T)(A/G)TGC(A/G)(A/G/T)T, 4, TAGTGCGGT at 3282, GAGTGCGGT at 2209, TAGTGCGGT at 1993, GTGTGCATT at 533.
- inverse positive strand, negative direction, looking for (A/G/T)(A/C/T)(A/G)TGC(A/G)(A/G/T)T, 1, GAGTGCAGT at 1472.
- inverse positive strand, positive direction, looking for (A/G/T)(A/C/T)(A/G)TGC(A/G)(A/G/T)T, 0.
- inverse negative strand, positive direction, looking for (A/G/T)(A/C/T)(A/G)TGC(A/G)(A/G/T)T, 3, ATGTGCAGT at 3962, GAATGCATT at 3072, GAGTGCAGT at 2328.

## ORE1 (Olsen) (4560-2846) UTRs
- Negative strand, negative direction: TGACGTGAG at 4341, TAACGTGAG at 3290.
- Positive strand, negative direction: ATCACGCCA at 3282.

## ORE1 (Olsen) negative direction (2596-1) distal promoters
- Negative strand, negative direction: TGACGTGAG at 2427, TGACGTGAG at 2001, TAACGTGTT at 1720, CTCACGTCA at 1472, TAACGTGAG at 1348.
- Positive strand, negative direction: CTCACGCCA at 2209, ATCACGCCA at 1993, CACACGTAA at 533.

## ORE1 (Olsen) positive direction (4050-1) distal promoters
- Positive strand, positive direction: TACACGTCA at 3962, TTACGTAAG at 3073, CTTACGTAA at 3072, CTCACGTCA at 2328, TGACGTAAG at 2207, TGGCGTACG at 2154.

# ORE2 (Olsen) random dataset samplings
- ORE2r0: 0.
- ORE2r1: 3, TAACGTGAT at 4032, TTACGTGAA at 1859, TTGCGTAAA at 1253.
- ORE2r2: 2, TAACGTAAA at 934, TTACGTGAT at 486.
- ORE2r3: 1, TGGCGTAAT at 4114.
- ORE2r4: 1, TGACGTGAA at 662.
- ORE2r5: 1, TTGCGTATG at 2070.
- ORE2r6: 1, TTACGTGCG at 2531.
- ORE2r7: 0.
- ORE2r8: 0.
- ORE2r9: 0.
- ORE2r0ci: 3, AACACGCTA at 3734, TTCACGCAA at 663, TATACGTAA at 399.
- ORE2r1ci: 1, CTTACGCAA at 4406.
- ORE2r2ci: 1, TGCACGCCA at 1469.
- ORE2r3ci: 2, TTTACGCTA at 2332, TTCACGCTA at 178.
- ORE2r4ci: 1, CGTACGCAA at 4318.
- ORE2r5ci: 2, TGCACGCCA at 3473, CGCACGCCA at 79.
- ORE2r6ci: 1, TATACGTCA at 838.
- ORE2r7ci: 0.
- ORE2r8ci: 2, TTTACGTTA at 3929, TATACGTTA at 3228.
- ORE2r9ci: 1, TTCACGTCA at 1860.

## ORE2r arbitrary (evens) (4560-2846) UTRs
- ORE2r0ci: AACACGCTA at 3734.
- ORE2r4ci: CGTACGCAA at 4318.
- ORE2r8ci: TTTACGTTA at 3929, TATACGTTA at 3228.

## ORE2r alternate (odds) (4560-2846) UTRs
- ORE2r1: TAACGTGAT at 4032.
- ORE2r3: TGGCGTAAT at 4114.
- ORE2r1ci: CTTACGCAA at 4406.
- ORE2r5ci: TGCACGCCA at 3473.

## ORE2r arbitrary positive direction (odds) (4445-4265) core promoters
- ORE2r1ci: CTTACGCAA at 4406.
- ORE2r4ci: CGTACGCAA at 4318.

## ORE2r alternate positive direction (evens) (4445-4265) core promoters
- ORE2r4ci: CGTACGCAA at 4318.

## ORE2r arbitrary positive direction (odds) (4265-4050) proximal promoters
- ORE2r3: TGGCGTAAT at 4114.

## ORE2r arbitrary negative direction (evens) (2596-1) distal promoters
- ORE2r2: TAACGTAAA at 934, TTACGTGAT at 486.
- ORE2r4: TGACGTGAA at 662.
- ORE2r6: TTACGTGCG at 2531.
- ORE2r0ci: TTCACGCAA at 663, TATACGTAA at 399.
- ORE2r2ci: TGCACGCCA at 1469.
- ORE2r6ci: TATACGTCA at 838.

## ORE2r alternate negative direction (odds) (2596-1) distal promoters
- ORE2r1: TTACGTGAA at 1859, TTGCGTAAA at 1253.
- ORE2r5: TTGCGTATG at 2070.
- ORE2r3ci: TTTACGCTA at 2332, TTCACGCTA at 178.
- ORE2r5ci: CGCACGCCA at 79.
- ORE2r9ci: TTCACGTCA at 1860.

## ORE2r arbitrary positive direction (odds) (4050-1) distal promoters
- ORE2r1: TTACGTGAA at 1859, TTGCGTAAA at 1253.
- ORE2r5: TTGCGTATG at 2070.
- ORE2r3ci: TTTACGCTA at 2332, TTCACGCTA at 178.
- ORE2r5ci: TGCACGCCA at 3473, CGCACGCCA at 79.
- ORE2r9ci: TTCACGTCA at 1860.

## ORE2r alternate positive direction (evens) (4050-1) distal promoters
- ORE2r2: TAACGTAAA at 934, TTACGTGAT at 486.
- ORE2r4: TGACGTGAA at 662.
- ORE2r6: TTACGTGCG at 2531.
- ORE2r0ci: AACACGCTA at 3734, TTCACGCAA at 663, TATACGTAA at 399.
- ORE2r2ci: TGCACGCCA at 1469.
- ORE2r6ci: TATACGTCA at 838.
- ORE2r8ci: TTTACGTTA at 3929, TATACGTTA at 3228.

# ORE1 (Olsen) analysis and results
As a transcription factor, ORE1 was reported to bind to consensus DNA sequences of TCGT
Comparison:
The occurrences of real ORE1 (Olsen)s are greater than the randoms. This suggests that the real ORE1 (Olsen)s are likely active or activable.

# Acknowledgements
The content on this page was first contributed by: Henry A. Hoff.