Variant report
| Variant | rs2397167 |
|---|---|
| Chromosome Location | chr6:54631181-54631182 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:2)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- 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 | GATA3 | chr6:54630878-54631225 | MCF-7 | breast: | n/a | chr6:54631063-54631075 chr6:54631062-54631069 |
| 2 | EP300 | chr6:54630852-54631271 | MCF-7 | breast: | n/a | n/a |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr6:54627133..54632625-chr6:54707387..54713886,8 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| KRASP1 | TF binding region |
| ENSG00000168143 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:22)
| rs_ID | r2[population] |
|---|---|
| rs10948847 | 0.83[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs11754191 | 0.89[JPT][hapmap];0.83[ASN][1000 genomes] |
| rs11754220 | 0.89[JPT][hapmap];0.83[ASN][1000 genomes] |
| rs12194012 | 0.83[MEX][hapmap] |
| rs1566753 | 0.87[GIH][hapmap];0.83[MKK][hapmap] |
| rs1572593 | 0.90[CEU][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs2135760 | 0.89[JPT][hapmap];0.83[ASN][1000 genomes] |
| rs4516942 | 0.87[GIH][hapmap];0.87[MEX][hapmap] |
| rs6459019 | 0.81[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs6929307 | 0.81[AMR][1000 genomes];0.80[EUR][1000 genomes] |
| rs6939756 | 0.83[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs6941518 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs6941548 | 0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs7752214 | 0.83[MEX][hapmap] |
| rs7755817 | 0.83[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs7762606 | 0.83[MEX][hapmap] |
| rs9296766 | 0.82[AMR][1000 genomes] |
| rs9464126 | 0.81[AMR][1000 genomes];0.84[EUR][1000 genomes] |
| rs9464129 | 0.83[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs9474957 | 0.88[CEU][hapmap] |
| rs9474980 | 0.83[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs973020 | 0.85[GIH][hapmap];0.91[MEX][hapmap];0.83[MKK][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 | nsv885900 | chr6:54517968-54852462 | Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 13 gene(s) | inside rSNPs | diseases |
| 2 | nsv885901 | chr6:54588069-54635417 | Enhancers Weak transcription Strong transcription Flanking Active TSS | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 3 | nsv885902 | chr6:54588069-54656673 | Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription | TF binding regionChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
