Variant report
| Variant | rs16979226 |
|---|---|
| Chromosome Location | chr19:45026615-45026616 |
| allele | C/T |
| 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 | chr19:45025124..45028007-chr19:45394431..45397224,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000130204 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:15)
| rs_ID | r2[population] |
|---|---|
| rs10402981 | 0.84[CHB][hapmap];0.86[JPT][hapmap] |
| rs10407028 | 0.86[JPT][hapmap] |
| rs10407556 | 0.86[CHB][hapmap];0.86[JPT][hapmap] |
| rs13345032 | 0.86[CHB][hapmap];0.86[JPT][hapmap] |
| rs1465723 | 0.86[CHB][hapmap];0.86[JPT][hapmap] |
| rs16959164 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.81[ASN][1000 genomes] |
| rs16979124 | 0.86[JPT][hapmap] |
| rs16979130 | 0.86[JPT][hapmap] |
| rs16979134 | 0.86[JPT][hapmap] |
| rs16979139 | 0.85[JPT][hapmap] |
| rs2117384 | 0.86[JPT][hapmap] |
| rs2571046 | 0.82[JPT][hapmap] |
| rs2571050 | 0.86[JPT][hapmap] |
| rs2686758 | 0.82[JPT][hapmap] |
| rs3786496 | 0.86[CHB][hapmap];0.86[JPT][hapmap] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1061350 | chr19:44869075-45035469 | Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 18 gene(s) | inside rSNPs | diseases |
| 2 | esv3358964 | chr19:45023012-45027410 | Bivalent/Poised TSS | Chromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 3 | esv3359491 | chr19:45023612-45027010 | Bivalent/Poised TSS | Chromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr19:45026400-45027000 | Bivalent/Poised TSS | Foreskin Fibroblast Primary Cells skin01 | Skin |
