Table 1 Genomic annotation of variants.
From: The role of neurotrophin genes involved in the vulnerability to gambling disorder
SNP | Gene | Genomic region | ENCODE Cis regulatory elements (CREs) | TF binding sites (JASPAR) |
|---|---|---|---|---|
rs6332 | NTF3 | Synonymous variant | – | – |
rs6489630 | NTF3 | Downstream gene variant | pELS (EH38E1589222) | – |
rs7956189 | NTF3 | Downstream gene variant | – | WT1 |
rs12273363 | BDNF | Upstream gene variant | pELS (EH38E1528854) | YY1 |
rs908867 | BDNF | Upstream gene variant | – | – |
rs1491850 | BDNF | Intron variant | – | – |
rs2274592 | CNTFR | Intron variant | – | ZNF740, WT1, CTCF, Znf281 |
rs4363285 | CNTFR | Intron variant | – | ELF3, SPIB, ELF1, EHF, CTCF |
rs10814123 | CNTFR | Intron variant | – | HFN1A, BARX2 |
rs3763614 | CNTFR | Intron variant | – | Nr5a2 |
rs657770 | NGFR | Intron variant | – | – |
rs534561 | NGFR (P75) | Intron variant | – | MZF1(var.2) |
rs741073 | NGFR (P75) | 3 prime UTR variant | adjacent to a dELS (EH38E1868997) | KLF9, MSANTD3 |
rs11140783 | NTRK2 | Intron variant | Adjacent to a dELS (EH38E2702614) | IRF8, IRF4 |
rs1545285 | NTRK2 | Intron variant | – | Dmbx1, OTX2 |
rs4412435 | NTRK2 | Intron variant | dELS (EH38E2702692) | BACH2, NFE2L1, MAFK, JUN (var.2), MAF::NFE2, Smad2::Smad3 |
rs10868241 | NTRK2 | Intron variant | – | Prmd15 |
rs4361832 | NTRK2 | Intron variant | – | NFIA, MSGN1 |
rs12000011 | NTRK2 | Intron variant | – | WTF1, Gfi1b |
rs1948308 | NTRK2 | Intron variant | – | HIC2, Nkx3-1 |
rs3739570 | NTRK2 | 3 prime UTR variant | – | – |
rs10780695 | NTRK2 | Downstream gene variant | – | Stat2, HOXC13 |
rs2117655 | NTRK3 | Intron variant | – | SOX15, SOX8 |
rs11638486 | NTRK3 | Intron variant | – | – |
rs1435403 | NTRK3 | Intron variant | – | Arid5a |
rs922232 | NTRK3 | Intron variant | – | HOXC13 |
rs2009853 | NTRK3 | Intron variant | - | – |
rs1461210 | NTRK3 | Intron variant | – | – |
rs1346164 | NTRK3 | Intron variant | – | GFI1, Gfi1b |
rs744993 | NTRK3-AS1 | Upstream gene variant | – | ZFP42 |
rs6328 | NFG-AS1 | Intron variant | – | INSM1 |
rs6537860 | NFG-AS1 | Intron variant | – | ZKSCAN5 |
rs1800601 | NTRK1 | 5 prime UTR variant | Prom (EH38E1388452) | – |
rs1998977 | NTRK1 | Intron variant | – | DMRTC2 |
rs10908521 | NTRK1 | Intron variant | – | – |
rs1800879 | NTRK1 | Intron variant | – | RELB |
