Variant report
| Variant | rs1461823 |
|---|---|
| Chromosome Location | chr3:28739478-28739479 |
| allele | A/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 | chr3:28645073..28647922-chr3:28738651..28741431,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:24)
| rs_ID | r2[population] |
|---|---|
| rs11717111 | 0.89[ASN][1000 genomes] |
| rs11717395 | 0.96[ASN][1000 genomes] |
| rs11921695 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs1350867 | 0.86[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs1461822 | 0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs17021677 | 0.92[ASN][1000 genomes] |
| rs17021763 | 0.86[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs17021787 | 0.96[ASN][1000 genomes] |
| rs17021793 | 0.96[ASN][1000 genomes] |
| rs2371341 | 0.86[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs34754155 | 0.87[ASN][1000 genomes] |
| rs4298010 | 0.87[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs4311180 | 0.86[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs4482629 | 0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs57372256 | 0.88[ASN][1000 genomes] |
| rs62244460 | 0.82[ASN][1000 genomes] |
| rs724188 | 0.95[ASN][1000 genomes] |
| rs73050672 | 0.92[ASN][1000 genomes] |
| rs73052505 | 0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs7426401 | 0.96[ASN][1000 genomes] |
| rs922288 | 0.96[ASN][1000 genomes] |
| rs9310869 | 0.92[ASN][1000 genomes] |
| rs9855864 | 0.86[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs9968141 | 0.82[EUR][1000 genomes];0.95[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | esv3328565 | chr3:27991169-28915035 | Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 28 gene(s) | inside rSNPs | diseases |
| 2 | nsv916364 | chr3:28468275-29146280 | Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
| 3 | nsv1001920 | chr3:28711075-28788920 | Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer | Chromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | n/a |
| 4 | esv3461677 | chr3:28734924-28744248 | Weak transcription Enhancers | Chromatin interactive region | n/a | inside rSNPs | n/a |
| 5 | esv3461678 | chr3:28734963-28744223 | Enhancers Weak transcription | Chromatin interactive region | n/a | inside rSNPs | n/a |
| 6 | esv3461679 | chr3:28734990-28744180 | Enhancers Weak transcription | Chromatin interactive region | n/a | inside rSNPs | n/a |
| 7 | esv3461680 | chr3:28734990-28744180 | Weak transcription Enhancers | Chromatin interactive region | n/a | inside rSNPs | n/a |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:28727200-28739600 | Weak transcription | HSMMtube | muscle |
| 2 | chr3:28737600-28740400 | Weak transcription | Gastric | stomach |
| 3 | chr3:28738600-28740000 | Weak transcription | Pancreas | Pancrea |
