Variant report
| Variant | rs6669988 |
|---|---|
| Chromosome Location | chr1:179243208-179243209 |
| 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 | chr1:179241287..179243492-chr1:179260059..179262994,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000057252 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:23)
| rs_ID | r2[population] |
|---|---|
| rs1004959 | 0.94[ASN][1000 genomes] |
| rs10157885 | 0.83[EUR][1000 genomes];0.88[ASN][1000 genomes] |
| rs12080991 | 1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs17277358 | 0.86[ASN][1000 genomes] |
| rs17361990 | 0.80[ASN][1000 genomes] |
| rs17362128 | 0.86[ASN][1000 genomes] |
| rs2017688 | 0.86[ASN][1000 genomes] |
| rs2274230 | 0.86[ASN][1000 genomes] |
| rs28459842 | 0.86[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs28914474 | 0.83[EUR][1000 genomes];0.88[ASN][1000 genomes] |
| rs28914485 | 0.88[ASN][1000 genomes] |
| rs3753532 | 0.86[ASN][1000 genomes] |
| rs55642919 | 0.88[ASN][1000 genomes] |
| rs55825882 | 0.86[ASN][1000 genomes] |
| rs55827544 | 0.86[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs55920203 | 0.86[ASN][1000 genomes] |
| rs55955319 | 0.86[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs56382583 | 0.88[ASN][1000 genomes] |
| rs60741626 | 0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs60826716 | 0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs9650997 | 0.86[ASN][1000 genomes] |
| rs9724754 | 0.86[ASN][1000 genomes] |
| rs9803885 | 0.83[EUR][1000 genomes];1.00[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1005278 | chr1:179197645-179371395 | Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionmiRNA target site | 16 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
