Variant report
| Variant | rs17017089 |
|---|---|
| Chromosome Location | chr4:143904995-143904996 |
| 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 | chr4:143903053..143905362-chr4:144105356..144107537,3 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000170185 | Chromatin interaction |
| ENSG00000250326 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:23)
| rs_ID | r2[population] |
|---|---|
| rs10003936 | 1.00[EUR][1000 genomes] |
| rs10008314 | 1.00[EUR][1000 genomes] |
| rs10021800 | 1.00[EUR][1000 genomes] |
| rs10023498 | 1.00[EUR][1000 genomes] |
| rs10027917 | 1.00[EUR][1000 genomes] |
| rs10519676 | 0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs11931764 | 1.00[EUR][1000 genomes] |
| rs11936087 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs28431915 | 1.00[EUR][1000 genomes] |
| rs28507672 | 1.00[EUR][1000 genomes] |
| rs28536468 | 0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs28549779 | 0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs28565503 | 1.00[EUR][1000 genomes] |
| rs28605749 | 0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs28636716 | 1.00[EUR][1000 genomes] |
| rs28704746 | 1.00[EUR][1000 genomes] |
| rs28875577 | 1.00[EUR][1000 genomes] |
| rs60921637 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs6822036 | 1.00[EUR][1000 genomes] |
| rs6846288 | 1.00[EUR][1000 genomes] |
| rs7683255 | 1.00[EUR][1000 genomes] |
| rs9992969 | 1.00[EUR][1000 genomes] |
| rs9996641 | 1.00[EUR][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 | nsv830102 | chr4:143820268-143953611 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer | Chromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| 2 | nsv1033285 | chr4:143884298-144010784 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | n/a |
| 3 | nsv537288 | chr4:143884298-144010784 | Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | n/a |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr4:143904200-143905400 | Enhancers | Fetal Intestine Large | intestine |
| 2 | chr4:143904600-143905400 | Enhancers | Fetal Intestine Small | intestine |
