Variant report
| Variant | rs12113542 |
|---|---|
| Chromosome Location | chr7:126738541-126738542 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:1)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:1 , 50 per page) page:
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| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | STAT3 | chr7:126737899-126738815 | MCF10A-Er-Src | breast: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| GRM8 | TF binding region |
rSNPs within LD-proxies of this variant (count:17)
| rs_ID | r2[population] |
|---|---|
| rs11563705 | 0.93[YRI][hapmap] |
| rs11563718 | 0.93[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs11563724 | 1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs11982266 | 1.00[YRI][hapmap] |
| rs12113383 | 1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs17150591 | 0.97[YRI][hapmap] |
| rs17866351 | 1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs17866880 | 1.00[YRI][hapmap] |
| rs17869423 | 1.00[YRI][hapmap] |
| rs17869595 | 1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs2106190 | 0.93[YRI][hapmap] |
| rs2283089 | 1.00[YRI][hapmap];0.83[AFR][1000 genomes] |
| rs6467112 | 0.99[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs6958100 | 1.00[YRI][hapmap] |
| rs6959743 | 1.00[EUR][1000 genomes] |
| rs6961743 | 1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs6965269 | 1.00[YRI][hapmap] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
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| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv831121 | chr7:126593363-126774413 | Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 6 gene(s) | inside rSNPs | diseases |
| 2 | nsv889189 | chr7:126699088-126963028 | Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 3 | esv2761367 | chr7:126717157-126865324 | Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr7:126735200-126742400 | Weak transcription | ES-UCSF4 Cell Line | embryonic stem cell |
