Variant report
| Variant | rs12697227 |
|---|---|
| Chromosome Location | chr5:29840035-29840036 |
| 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 | chr15:66795621..66798316-chr5:29839740..29841936,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000174444 | Chromatin interaction |
| ENSG00000174442 | Chromatin interaction |
| ENSG00000200623 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:15)
| rs_ID | r2[population] |
|---|---|
| rs10520953 | 1.00[CHB][hapmap];0.88[GIH][hapmap];0.90[JPT][hapmap];0.90[MEX][hapmap] |
| rs1428318 | 0.93[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs1428321 | 1.00[CHB][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs16899550 | 1.00[CHB][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs16899578 | 1.00[CHB][hapmap];0.88[GIH][hapmap];0.90[JPT][hapmap] |
| rs16899679 | 0.83[CHB][hapmap];0.86[MEX][hapmap] |
| rs72745276 | 0.93[AMR][1000 genomes];0.84[ASN][1000 genomes] |
| rs72745277 | 0.93[AMR][1000 genomes];0.84[ASN][1000 genomes] |
| rs72745278 | 0.91[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs72745295 | 0.93[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs7449322 | 1.00[CEU][hapmap];1.00[YRI][hapmap] |
| rs7711606 | 1.00[CEU][hapmap];1.00[YRI][hapmap] |
| rs9292344 | 0.93[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs9790891 | 0.93[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs9791032 | 0.93[AMR][1000 genomes];0.85[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 | nsv1016603 | chr5:29102713-29843965 | Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 43 gene(s) | inside rSNPs | diseases |
| 2 | nsv537712 | chr5:29102713-29843965 | Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 43 gene(s) | inside rSNPs | diseases |
| 3 | esv3385368 | chr5:29548608-29910057 | Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
