Variant report
| Variant | rs2342465 |
|---|---|
| Chromosome Location | chr3:99215166-99215167 |
| allele | A/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:1)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:1 , 50 per page) page:
1
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr3:99215007..99217420-chr3:99218950..99221198,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000243296 | TF binding region |
| ENSG00000243296 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:17)
| rs_ID | r2[population] |
|---|---|
| rs13086098 | 0.86[ASN][1000 genomes] |
| rs13088964 | 0.86[ASN][1000 genomes] |
| rs13101237 | 0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs2248792 | 1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes] |
| rs34162135 | 0.88[ASN][1000 genomes] |
| rs34468147 | 0.86[ASN][1000 genomes] |
| rs34580839 | 1.00[ASN][1000 genomes] |
| rs34964323 | 0.86[ASN][1000 genomes] |
| rs35217023 | 1.00[ASN][1000 genomes] |
| rs35722344 | 0.86[ASN][1000 genomes] |
| rs35892771 | 0.96[ASN][1000 genomes] |
| rs6765840 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes] |
| rs71313550 | 0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs71313551 | 0.91[ASN][1000 genomes] |
| rs71313554 | 0.81[ASN][1000 genomes] |
| rs7629812 | 0.86[ASN][1000 genomes] |
| rs7649391 | 0.95[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1007486 | chr3:98597738-99249081 | Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 14 gene(s) | inside rSNPs | diseases |
| 2 | nsv530026 | chr3:98837320-99340537 | ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 3 | nsv3916 | chr3:99186008-99232052 | Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 4 | esv1831522 | chr3:99207253-99219235 | Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 5 | esv17242 | chr3:99207484-99216623 | ZNF genes & repeats | TF binding regionChromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
| 6 | esv3422853 | chr3:99208019-99342748 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
