Variant report
| Variant | rs17313485 |
|---|---|
| Chromosome Location | chr5:59172911-59172912 |
| allele | A/C |
| 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 | chr5:59169313..59171602-chr5:59172482..59174031,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:22)
| rs_ID | r2[population] |
|---|---|
| rs13155217 | 1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs13156655 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs13157748 | 0.80[EUR][1000 genomes] |
| rs13162211 | 1.00[CEU][hapmap];0.89[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs13168097 | 0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.86[MKK][hapmap];0.85[TSI][hapmap];0.82[YRI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs13172075 | 1.00[CEU][hapmap];0.82[YRI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs13175506 | 0.92[EUR][1000 genomes] |
| rs13182982 | 0.85[TSI][hapmap] |
| rs13189896 | 1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs17369962 | 0.81[EUR][1000 genomes] |
| rs17371592 | 1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs34162234 | 0.95[EUR][1000 genomes] |
| rs34216963 | 0.81[EUR][1000 genomes] |
| rs34274982 | 1.00[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs34562965 | 0.92[EUR][1000 genomes] |
| rs34597555 | 0.81[EUR][1000 genomes] |
| rs35615026 | 1.00[EUR][1000 genomes] |
| rs67593819 | 1.00[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs71592682 | 0.81[EUR][1000 genomes] |
| rs71627972 | 0.87[EUR][1000 genomes] |
| rs71627973 | 1.00[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs73097690 | 1.00[AMR][1000 genomes];0.97[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1018015 | chr5:58889470-59532667 | Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 13 gene(s) | inside rSNPs | diseases |
| 2 | nsv537766 | chr5:58889470-59532667 | Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 13 gene(s) | inside rSNPs | diseases |
| 3 | nsv534614 | chr5:58962510-59388525 | Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 12 gene(s) | inside rSNPs | diseases |
| 4 | nsv968095 | chr5:59170889-59174053 | Enhancers Weak transcription | Chromatin interactive region | n/a | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr5:59160800-59189000 | Weak transcription | Aorta | Aorta |
| 2 | chr5:59172400-59176000 | Weak transcription | iPS DF 19.11 Cell Line | embryonic stem cell |
