Variant report
| Variant | rs7579234 |
|---|---|
| Chromosome Location | chr2:86796953-86796954 |
| 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:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr2:86794284..86797031-chr2:86850434..86852026,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000239305 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:14)
| rs_ID | r2[population] |
|---|---|
| rs1030887 | 0.93[ASW][hapmap];0.93[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap] |
| rs11127043 | 0.92[CEU][hapmap];0.86[MKK][hapmap];0.80[YRI][hapmap] |
| rs1518810 | 0.93[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap] |
| rs1518812 | 0.93[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap] |
| rs17027265 | 0.93[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap] |
| rs17027270 | 0.93[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap] |
| rs17027280 | 0.87[ASW][hapmap];0.93[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap] |
| rs17027296 | 0.93[ASW][hapmap];0.93[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap] |
| rs34605051 | 0.93[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap] |
| rs6740863 | 0.93[ASW][hapmap];0.93[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap] |
| rs7562493 | 0.87[ASW][hapmap];0.93[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap] |
| rs7585722 | 0.93[ASW][hapmap];0.93[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap] |
| rs7586028 | 0.93[ASW][hapmap];0.93[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap] |
| rs7608800 | 0.93[CEU][hapmap] |
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 | esv3412938 | chr2:86370969-86867936 | Strong transcription Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 77 gene(s) | inside rSNPs | diseases |
| 2 | nsv532724 | chr2:86622295-87086407 | Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 45 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:4)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs7579234 | NDUFB6 | trans | parietal | SCAN |
| rs7579234 | VPS24 | Cis_1M | lymphoblastoid | RTeQTL |
| rs7579234 | VPS24 | cis | parietal | SCAN |
| rs7579234 | MRPL35 | cis | parietal | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
