Variant report
| Variant | rs698237 |
|---|---|
| Chromosome Location | chr3:23002120-23002121 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:5)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:5 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr3:23001996..23003557-chr3:23243034..23245910,2 | MCF-7 | breast: | |
| 2 | chr3:22605314..22606827-chr3:23001573..23002522,7 | MCF-7 | breast: | |
| 3 | chr3:22770781..22772111-chr3:23001246..23002368,7 | MCF-7 | breast: | |
| 4 | chr3:22997497..23000412-chr3:23001550..23003702,2 | K562 | blood: | |
| 5 | chr3:22771584..22772119-chr3:23001665..23002525,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000182247 | Chromatin interaction |
| ENSG00000233153 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:13)
| rs_ID | r2[population] |
|---|---|
| rs1683061 | 0.82[EUR][1000 genomes] |
| rs2605128 | 0.82[EUR][1000 genomes] |
| rs2605129 | 0.82[EUR][1000 genomes] |
| rs698236 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs698238 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs702042 | 0.84[AMR][1000 genomes];0.80[EUR][1000 genomes] |
| rs711710 | 0.83[AMR][1000 genomes];0.80[EUR][1000 genomes] |
| rs711719 | 0.89[ASN][1000 genomes] |
| rs711720 | 0.83[EUR][1000 genomes] |
| rs822199 | 0.80[EUR][1000 genomes] |
| rs822201 | 0.84[ASN][1000 genomes] |
| rs822782 | 0.85[AMR][1000 genomes];0.80[EUR][1000 genomes] |
| rs822793 | 0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
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 | nsv1014828 | chr3:22554271-23033498 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
| 2 | nsv1008306 | chr3:22762892-23026548 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 3 | nsv998236 | chr3:22979632-23011352 | Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer | Chromatin interactive region | 2 gene(s) | inside rSNPs | n/a |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:23002000-23003600 | Weak transcription | Fetal Lung | lung |
