Spreadsheet: 7b3ab6db-ac60-4008-819a-b43a85406dfb
Sheet: Sheet1

Table S6. Oligonucletide primers and siRNA duplexes | Unnamed: 1 | Unnamed: 2 | Unnamed: 3 | Unnamed: 4
A. For transcription assay and RNA-ChIP analysis
L1 nomenclature | Target | Primer name | Forward primer | Reverse primer
L1a | Body | L1a.1 | GGAGTCTAGAGACGGTAGGC | TGGTAGGTACCACACCCACAG
 |  | L1a.2 | CAAGGCCTACCGTCTCTAGAC | CTGGAAGCTTCATCCCAACG
 | Promoter | L1a.pro | [NAME] | CTGTGTTTCTGGTTGGAGG
L1b | Body | L1b.1 | CTTCCCAAGTGAGGCAAAGC | TTCCATCTGAGGTACTGGGTTCAT
 |  | L1b.2 | GCTTTGCCTCACTTGGGAAG | GCGGTGCGCCGTTTT
 |  | L1b.3 | CCAGTTCAGTTGGAGCTCCC | ACGGAGTCTCGCTGATTGCTA
 |  | [NAME] | AGGGAGCTCCAACTGAACTG | GGTCTGTTGGAATACCCTG
 | Promoter | L1b.pro | CTTCCCAAGTGAGGCAAAG | GGTGACTGTAGCTAAAAACAATG
L1c | Body | L1c.1 | GTTGTTGAATCTTTTCTGCATC | CCAATATCCTTGATGCAAAAATC
 |  | L1c.2 | TATCAATAGATGCAGAAAAGATTC | TGGCCAGAACTTCCAACAC
 | Promoter | L1c.pro | GCACCCACTGTCCTGC | CACCTTTTTTCTTCAGGGAG
L1d | Body | L1d.1 | TTGCCACAATTTCAGATGGTG | GGAAATAGAGACACAAAAAGCTTTC
 |  | L1d.2 | CTCTGAATAGACCAATAACACCATC | TTGCATCAATGTTCATCAAG
 |  | L1d.3 | AGATCTTCCTTCCTCCATCC | [NAME]
 |  | L1d.4 | [NAME] | AGGACTTGCTTTATGAATCTGC
 | Promoter | L1d.pro | TTAGTGTCAAAAGAACTTGTTGGG | GCCTCGCCCTGCTTC
L1e | Body | L1e | GGGTCCTACCTCACGGAGTCT | GCAAGCCTGGGCAATGG
 | Promoter | L1e.pro | CCAAAAGCTGTTTTCTTGAAG | TTCCCGAGTGAGGCAATG
L1f | Promoter | L1f.pro | CAGACGCTCTGGAGTACCAC | GCCTCGCCCTGCTTC
L1g | Body | L1g | GATAGACCGCTAGCAAGACCAAC | ATCGGTGGTGATATCCCCA
L1h | Body | L1h | GCAGGCACCCAACTGTACTGT | TTCAGCCCCTATTCATCTGCTT
L1i | Body | L1i | CCAGGGAGCCAAGTGATCTG | AGCATCCCAGTTCAACCTCAGA
 | Promoter | L1i.pro | GAGGGATCACTTTGCAGACTTC | CCCAGGTAAGGCGATGC
L1j | Body | L1j | GTAGGCGGGTTTTACCCTCAT | TTCCCCCAGGTGCTTTGTC
L1k | Body | L1k | CATCTCACTGGAACTGGTTGGA | TGAGGCAACACCCCACCTT
 | Promoter | L1k.pro | GTTACCACCTGTCAAAGCCTC | AACACCCCACCTTGCTTC
L1l | Promoter | L1l.pro | GAAGTTGTGTGATCATATCTATGGC | CTGTGTGGCTCTCAGGTGG
L1m | Promoter | L1m.pro | CTCATGCTCAGTGCGCTG | GAAGATATCGTATAGGCAGTTGG
Control gene | 18S |  | CATTCGAATGTCTGCCC | GCTATTGGAGCTGGAATTACC
 | 5S |  | GTCTACGGCCATACCACC | AAGCCTACAGCACCCG
 | ACTB |  | GTGGCCTTGGAGTGTGTA | GTCAGGATCTTCATGAGGTAGTC
B. For transcription assays
Gene name |  | Description | Forward primer | Reverse primer
1. Zinc finger, DHHC-type containing 6 |  | [NAME] | TGAGGTGTCCATGACGGAGTCA | AAACCCAACCTCAGTGTGGTCC
2. SNARE Vti1a-beta protein |  | VTI1A | ACCGAGCAAATTGGTCAGGA | TGACCACGATGATCCCTAGGA
3. Caspase 7 cysteine protease |  | CASP7 | CATGCGATCCATCAAGACCA | TTTCGAACGCCCATACCTG
4. DNA-crosslink repair gene SNM1 |  | DCLRE1A | AAATACCTGGAACCGGCTTTAC | ATTCAGTGTCCAGTGGCAATG
5. [NAME] receptor |  | ADRB1 | AGCTCATCTTTGTGGAGAAGGA | CAAGGAACATCAGCAAGCCAC
6. CTCL tumor antigen L14-2 |  | C10orf118 | [NAME] | GGATTCAGACTGAAGCTGTGCA
7. Tudor domain containing 1 |  | TDRD1 | [NAME] | GCACGGTACCACTGATCATCC
8. Actin-binding LIM protein 1 |  | ABLIM1 | AAGGATTTAGCAGCCATTCCG | TGGTACCCTTCTGCTGATGGA
9. Hypothetical protein LOC57700 |  | [NAME] | GGCTGCAAAGTGCCTTACACA | CCAAGCCCCAGTTAATTGCTT
10. TruB pseudouridine synthase 1 |  | TRUB1 | AGCCCGAGGAGTTCTGGTTGTT | TTTCCCCAGTTCTCCAATGGC
11. Attractin-like 1 |  | ATRNL1 | ACACAACACTACTACAGTGGCTTC | CATACACTCCATGCCATTGC
12. GDNF family receptor alpha 1 |  | [NAME] | AGATCTCGCCTTGCGGATTT | ATGACTGTGCCAATAAGCCCC
13. Hypothetical protein LOC57698 |  | KIAA1598 | TATTGCTTGCTCCTTCAGACTG | CTCCCTCTTTCCCTTTTATTCC
C. For transcription knockdown
Stealth RNAi duplexes |  |  | Sense | Antisense
Custom made | FL-L1b siRNA#1 |  | 5'- AGAGCCAAAGACACAAACCACAUUA | 5'- UAAUGUGGUUUGUGUCUUUGGCUCU
 | FL-L1b siRNA#2 |  | 5'- GCCAAAGACACAAACCACAUUAUUA | 5'- UAAUAAUGUGGUUUGUGUCUUUGGC
Pre-designed | [NAME] ([NAME]) |  | 5'- AGAAGUUUGCAUUAAUUGAGGUUCC | 5'- GGAACCUCAAUUAAUGCAAACUUCU
 | TRUB1 siRNA (HSS135001) |  | 5'- AAUUCCAACAACCAGAACUCCUCGG | 5'- CCGAGGAGUUCUGGUUGUUGGAAUU
 | ATRNL1 siRNA (HSS119705) |  | 5'- AAAGAUUGGUGUCAAGAACCAUCUC | 5'- GAGAUGGUUCUUGACACCAAUCUUU
 | GFRA1 siRNA (HSS142174) |  | 5'- AUAAUUACCAUUGGAAAUACAGAGG | 5'- CCUCUGUAUUUCCAAUGGUAAUUAU
D. For DNA-ChIP and real-time PCR analysis
Primer name | Target region |  | Forward primer | Reverse primer
A3.1 | CENP-A cluster [NAME] |  | CCTAAGTTCTCCACTATCATCATC | TCAGTCAGGCTGCCAG
A3.2 | CENP-A cluster [NAME] |  | TGATTTATTCAGGGTGAGTCC | CCTATTTACCATGTCCCTCC
A4 | CENP-A cluster A4 |  | GTTGAATAGAAGAATGGCTCAG | GAAAGACCTTCCAAGACCAG
C1 | non-CENP-A binding region |  | GGCTCTTCTGAGTCTTGACC | GGTGTGACCAGCTATGGC
C2 | non-CENP-A binding region |  | CGTTTGATTTCCATTCAGC | GCATGGGCCTTTGTG