Variant report
| Variant | rs10838579 |
|---|---|
| Chromosome Location | chr11:46241968-46241969 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:2)
- CpG islands (count:0)
- Chromatin interactive region (count:7)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:2 , 50 per page) page:
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| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | YY1 | chr11:46241608-46241977 | H1-hESC | embryonic stem cell: | n/a | chr11:46241742-46241752 chr11:46241743-46241751 chr11:46241735-46241754 chr11:46241730-46241752 chr11:46241856-46241866 chr11:46241856-46241866 chr11:46241741-46241749 |
| 2 | RCOR1 | chr11:46241837-46242177 | K562 | blood: | n/a | n/a |
| No data |
(count:7 , 50 per page) page:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr11:46235668..46238517-chr11:46241557..46245176,4 | K562 | blood: | |
| 2 | chr11:46240364..46242725-chr11:46242954..46244645,2 | K562 | blood: | |
| 3 | chr11:46241197..46245496-chr11:46256169..46258783,6 | K562 | blood: | |
| 4 | chr11:46241931..46243752-chr11:46246107..46248371,2 | K562 | blood: | |
| 5 | chr11:46231907..46234628-chr11:46240321..46242392,2 | K562 | blood: | |
| 6 | chr11:46240075..46247012-chr11:46255086..46262989,16 | K562 | blood: | |
| 7 | chr11:46240341..46242626-chr11:46245382..46247122,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000255269 | TF binding region |
| ENSG00000254639 | Chromatin interaction |
| ENSG00000255269 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:17)
| rs_ID | r2[population] |
|---|---|
| rs10838573 | 0.88[JPT][hapmap];0.85[EUR][1000 genomes] |
| rs10838578 | 0.86[AMR][1000 genomes];0.96[ASN][1000 genomes] |
| rs11038803 | 1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs11038811 | 0.84[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs11038812 | 1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes] |
| rs11038814 | 0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs11038815 | 0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs11038816 | 0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs12221745 | 0.82[AMR][1000 genomes];0.95[ASN][1000 genomes] |
| rs12793350 | 0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs17725617 | 0.84[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs4755349 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[ASN][1000 genomes] |
| rs4756060 | 0.84[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs4756065 | 0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs4756066 | 1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs71474108 | 0.90[ASN][1000 genomes] |
| rs870498 | 0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][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 | nsv1051344 | chr11:46188818-46306447 | Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 47 gene(s) | inside rSNPs | diseases |
| 2 | nsv541028 | chr11:46188818-46306447 | Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 47 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr11:46241400-46244200 | Weak transcription | Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells | embryonic stem cell |
| 2 | chr11:46241800-46242600 | Enhancers | K562 | blood |
