Variant report
| Variant | rs7163623 |
|---|---|
| Chromosome Location | chr15:60060482-60060483 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:18)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:18 , 50 per page) page:
1
| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | HEY1 | chr15:60060473-60061094 | K562 | blood: | n/a | n/a |
| 2 | POLR2A | chr15:60060409-60061031 | Hela-S3 | cervix: | n/a | n/a |
| 3 | TAF1 | chr15:60060468-60060787 | H1-hESC | embryonic stem cell: | n/a | n/a |
| 4 | TAF1 | chr15:60060478-60061033 | GM12891 | blood: | n/a | n/a |
| 5 | ZBTB33 | chr15:60060443-60060774 | HepG2 | liver: | n/a | n/a |
| 6 | POLR2A | chr15:60060449-60061294 | GM12878 | blood: | n/a | n/a |
| 7 | POLR2A | chr15:60060445-60060728 | H1-hESC | embryonic stem cell: | n/a | n/a |
| 8 | ZBTB33 | chr15:60060478-60060708 | K562 | blood: | n/a | n/a |
| 9 | HEY1 | chr15:60060467-60061150 | HepG2 | liver: | n/a | n/a |
| 10 | TCF12 | chr15:60060481-60060638 | GM12878 | blood: | n/a | n/a |
| 11 | HEY1 | chr15:60060438-60060626 | HepG2 | liver: | n/a | n/a |
| 12 | POU2F2 | chr15:60060432-60061007 | GM12878 | blood: | n/a | n/a |
| 13 | TAF1 | chr15:60060481-60060660 | H1-hESC | embryonic stem cell: | n/a | n/a |
| 14 | POLR2A | chr15:60060458-60060816 | GM12891 | blood: | n/a | n/a |
| 15 | POLR2A | chr15:60060479-60060700 | GM12891 | blood: | n/a | n/a |
| 16 | ZBTB33 | chr15:60060463-60061388 | K562 | blood: | n/a | n/a |
| 17 | POLR2A | chr15:60060407-60061323 | H1-hESC | embryonic stem cell: | n/a | n/a |
| 18 | TAF1 | chr15:60060434-60060658 | Hela-S3 | cervix: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| RPS3AP6 | TF binding region |
rSNPs within LD-proxies of this variant (count:17)
| rs_ID | r2[population] |
|---|---|
| rs1437472 | 0.81[EUR][1000 genomes] |
| rs1437487 | 1.00[CEU][hapmap] |
| rs16941757 | 0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs2008741 | 0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap] |
| rs2414645 | 0.83[CEU][hapmap] |
| rs28593065 | 0.84[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs4620904 | 0.82[MEX][hapmap] |
| rs4775202 | 0.86[EUR][1000 genomes] |
| rs4775205 | 1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap] |
| rs4775210 | 0.84[EUR][1000 genomes] |
| rs6494144 | 0.80[EUR][1000 genomes] |
| rs8032951 | 0.83[CEU][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];0.81[JPT][hapmap];0.94[MEX][hapmap];0.82[MKK][hapmap];0.82[TSI][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes] |
| rs965353 | 1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.92[YRI][hapmap] |
| rs965355 | 1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap] |
| rs9673028 | 0.86[EUR][1000 genomes] |
| rs9972499 | 0.85[AMR][1000 genomes];0.80[ASN][1000 genomes] |
| rs9972503 | 0.85[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv904280 | chr15:60042722-60524025 | Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
| 2 | nsv977722 | chr15:60059391-60063331 | Inactive region | TF binding region | 1 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs7163623 | MNS1 | cis | parietal | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
