Variant report
| Variant | rs17085704 |
|---|---|
| Chromosome Location | chr9:85297314-85297315 |
| 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 | chr9:85290930..85294164-chr9:85296780..85300080,3 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:28)
| rs_ID | r2[population] |
|---|---|
| rs10122746 | 0.87[EUR][1000 genomes] |
| rs10512132 | 0.86[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs10512133 | 0.89[EUR][1000 genomes] |
| rs10867862 | 0.82[EUR][1000 genomes] |
| rs11139640 | 1.00[EUR][1000 genomes] |
| rs11139646 | 1.00[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs11139650 | 0.96[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs11139652 | 0.90[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs11139653 | 0.96[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs11139654 | 0.96[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs11139661 | 0.86[EUR][1000 genomes] |
| rs11139665 | 0.96[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs11139680 | 0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs11139682 | 0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs11139683 | 0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs11139700 | 0.89[ASN][1000 genomes] |
| rs11139723 | 1.00[GIH][hapmap] |
| rs1571905 | 1.00[ASN][1000 genomes] |
| rs17085592 | 0.96[EUR][1000 genomes] |
| rs2001818 | 0.86[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs73648460 | 0.96[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs73648462 | 0.93[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs73648463 | 0.89[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs73650741 | 1.00[EUR][1000 genomes] |
| rs7853040 | 0.89[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs7853471 | 0.89[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs7875519 | 0.96[EUR][1000 genomes] |
| rs7875637 | 0.96[EUR][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 | nsv831641 | chr9:85145561-85309589 | Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS | Chromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 2 | nsv428539 | chr9:85240027-85402367 | Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs17085704 | ITFG1 | trans | brain | seeQTL |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr9:85293000-85297400 | Weak transcription | iPS DF 19.11 Cell Line | embryonic stem cell |
