Variant report
| Variant | rs3906839 |
|---|---|
| Chromosome Location | chr12:42117246-42117247 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr12:42116428..42118645-chr12:42119416..42120993,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:20)
| rs_ID | r2[population] |
|---|---|
| rs10161524 | 0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs11608265 | 1.00[ASN][1000 genomes] |
| rs11609867 | 1.00[ASN][1000 genomes] |
| rs11611316 | 1.00[ASN][1000 genomes] |
| rs11614531 | 1.00[ASN][1000 genomes] |
| rs11615811 | 1.00[CHB][hapmap] |
| rs12816326 | 1.00[ASN][1000 genomes] |
| rs17591910 | 1.00[ASN][1000 genomes] |
| rs17651175 | 1.00[ASN][1000 genomes] |
| rs34065803 | 1.00[ASN][1000 genomes] |
| rs34572373 | 1.00[ASN][1000 genomes] |
| rs4768363 | 0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs55725023 | 1.00[ASN][1000 genomes] |
| rs61924341 | 1.00[ASN][1000 genomes] |
| rs61939329 | 1.00[ASN][1000 genomes] |
| rs61939354 | 1.00[ASN][1000 genomes] |
| rs61940382 | 1.00[ASN][1000 genomes] |
| rs61940385 | 1.00[ASN][1000 genomes] |
| rs61940407 | 1.00[ASN][1000 genomes] |
| rs73120223 | 1.00[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv899040 | chr12:41905897-42181706 | Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| 2 | nsv832386 | chr12:42017259-42189476 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| 3 | nsv899043 | chr12:42058138-42313665 | Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| 4 | nsv899044 | chr12:42058138-42321161 | Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr12:42103000-42118800 | Weak transcription | H1 BMP4 Derived Mesendoderm Cultured Cells | ES cell derived |
