Variant report
| Variant | rs28428739 |
|---|---|
| Chromosome Location | chr22:31381891-31381892 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:11)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:11 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr22:31370290..31374251-chr22:31379904..31382111,3 | MCF-7 | breast: | |
| 2 | chr22:31381773..31383652-chr22:31385424..31388116,2 | MCF-7 | breast: | |
| 3 | chr22:31369032..31371901-chr22:31381696..31383257,2 | K562 | blood: | |
| 4 | chr22:31363826..31366771-chr22:31380885..31382665,2 | MCF-7 | breast: | |
| 5 | chr22:31378816..31383088-chr22:31474878..31478624,4 | MCF-7 | breast: | |
| 6 | chr22:31363809..31367376-chr22:31377892..31382515,6 | K562 | blood: | |
| 7 | chr22:31380811..31382540-chr22:31388088..31390442,2 | K562 | blood: | |
| 8 | chr22:31380367..31382081-chr22:31392935..31394639,2 | K562 | blood: | |
| 9 | chr22:31363045..31367376-chr22:31378026..31383463,6 | K562 | blood: | |
| 10 | chr22:31375745..31378647-chr22:31380130..31383422,4 | K562 | blood: | |
| 11 | chr22:31380210..31382621-chr22:31475184..31477369,3 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000183963 | Chromatin interaction |
| ENSG00000253352 | Chromatin interaction |
| ENSG00000133422 | Chromatin interaction |
| ENSG00000269972 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:35)
| rs_ID | r2[population] |
|---|---|
| rs11089483 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs12158256 | 1.00[EUR][1000 genomes] |
| rs12166075 | 0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs12166445 | 1.00[EUR][1000 genomes] |
| rs12166521 | 1.00[EUR][1000 genomes] |
| rs12166797 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs12167130 | 1.00[EUR][1000 genomes] |
| rs12168605 | 1.00[EUR][1000 genomes] |
| rs12168997 | 1.00[EUR][1000 genomes] |
| rs12169136 | 1.00[EUR][1000 genomes] |
| rs12170790 | 1.00[EUR][1000 genomes] |
| rs13433649 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs16989109 | 1.00[EUR][1000 genomes] |
| rs16989230 | 0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs2232171 | 1.00[EUR][1000 genomes] |
| rs2232180 | 1.00[EUR][1000 genomes] |
| rs35239241 | 1.00[EUR][1000 genomes] |
| rs56686418 | 1.00[EUR][1000 genomes] |
| rs5994374 | 1.00[EUR][1000 genomes] |
| rs5997890 | 1.00[EUR][1000 genomes] |
| rs61736799 | 1.00[EUR][1000 genomes] |
| rs7284605 | 1.00[EUR][1000 genomes] |
| rs9619138 | 1.00[EUR][1000 genomes] |
| rs9619139 | 1.00[EUR][1000 genomes] |
| rs9619140 | 1.00[EUR][1000 genomes] |
| rs9619152 | 1.00[EUR][1000 genomes] |
| rs9619154 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9621106 | 1.00[EUR][1000 genomes] |
| rs9621111 | 1.00[EUR][1000 genomes] |
| rs9621121 | 1.00[EUR][1000 genomes] |
| rs9621129 | 1.00[EUR][1000 genomes] |
| rs9621131 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9621146 | 0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9621150 | 0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9621151 | 0.89[AFR][1000 genomes];1.00[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv9896 | chr22:31369204-31513933 | Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 35 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr22:31374400-31384000 | Weak transcription | HSMMtube | muscle |
| 2 | chr22:31379800-31382400 | Enhancers | HepG2 | liver |
| 3 | chr22:31381000-31385200 | Weak transcription | Primary hematopoietic stem cells short term culture | blood |
| 4 | chr22:31381800-31382200 | Enhancers | iPS-15b Cell Line | embryonic stem cell |
