Variant report
| Variant | rs2338436 |
|---|---|
| Chromosome Location | chr3:180366067-180366068 |
| allele | A/G |
| 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:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr3:180365706..180368494-chr3:180706164..180707812,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000242808 | Chromatin interaction |
| ENSG00000205981 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:11)
| rs_ID | r2[population] |
|---|---|
| rs11914833 | 1.00[CEU][hapmap];0.83[EUR][1000 genomes] |
| rs11923577 | 0.88[EUR][1000 genomes] |
| rs13434282 | 1.00[CEU][hapmap];0.85[YRI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs60177071 | 0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs60226914 | 0.88[EUR][1000 genomes] |
| rs60931741 | 0.88[EUR][1000 genomes] |
| rs6807767 | 1.00[CEU][hapmap];0.88[EUR][1000 genomes] |
| rs73051767 | 0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs7627857 | 1.00[CEU][hapmap];0.94[GIH][hapmap];1.00[MEX][hapmap];0.86[YRI][hapmap] |
| rs7645817 | 1.00[CHD][hapmap] |
| rs9864971 | 0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][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 | esv3359190 | chr3:180298396-180397223 | Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 11 gene(s) | inside rSNPs | diseases |
| 2 | nsv999338 | chr3:180348143-181160251 | Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 41 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
