Variant report
| Variant | rs73394558 |
|---|---|
| Chromosome Location | chr6:24757038-24757039 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:4)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:4 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr6:24728324..24730714-chr6:24754994..24758482,3 | K562 | blood: | |
| 2 | chr6:24754328..24757631-chr6:24775519..24778646,3 | K562 | blood: | |
| 3 | chr6:24719521..24723153-chr6:24754437..24759094,5 | MCF-7 | breast: | |
| 4 | chr6:24718552..24723033-chr6:24754050..24760270,11 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000112312 | Chromatin interaction |
| ENSG00000112308 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:35)
| rs_ID | r2[population] |
|---|---|
| rs1002649 | 1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs12183400 | 1.00[EUR][1000 genomes] |
| rs16889670 | 1.00[EUR][1000 genomes] |
| rs56208026 | 0.91[AFR][1000 genomes];0.90[AMR][1000 genomes] |
| rs59427770 | 0.91[AFR][1000 genomes];0.90[AMR][1000 genomes] |
| rs6901466 | 1.00[EUR][1000 genomes] |
| rs6917565 | 0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs6934938 | 1.00[EUR][1000 genomes] |
| rs6935339 | 1.00[EUR][1000 genomes] |
| rs73394556 | 0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs73394570 | 1.00[EUR][1000 genomes] |
| rs73394575 | 1.00[EUR][1000 genomes] |
| rs73394577 | 1.00[EUR][1000 genomes] |
| rs73394578 | 1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs73394591 | 1.00[EUR][1000 genomes] |
| rs73396453 | 0.90[AFR][1000 genomes];0.90[AMR][1000 genomes] |
| rs73728683 | 0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs7757501 | 1.00[EUR][1000 genomes] |
| rs7771462 | 0.91[AFR][1000 genomes];0.90[AMR][1000 genomes] |
| rs9461060 | 1.00[EUR][1000 genomes] |
| rs9461061 | 1.00[EUR][1000 genomes] |
| rs9461062 | 1.00[EUR][1000 genomes] |
| rs9461063 | 1.00[EUR][1000 genomes] |
| rs9461064 | 1.00[EUR][1000 genomes] |
| rs9461065 | 1.00[EUR][1000 genomes] |
| rs9467284 | 1.00[EUR][1000 genomes] |
| rs9467285 | 1.00[EUR][1000 genomes] |
| rs9467288 | 1.00[EUR][1000 genomes] |
| rs9467289 | 1.00[EUR][1000 genomes] |
| rs9467290 | 1.00[EUR][1000 genomes] |
| rs9467291 | 1.00[EUR][1000 genomes] |
| rs9467292 | 1.00[EUR][1000 genomes] |
| rs9467293 | 1.00[EUR][1000 genomes] |
| rs9467295 | 1.00[EUR][1000 genomes] |
| rs9467296 | 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 | nsv830609 | chr6:24712086-24896647 | Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 68 gene(s) | inside rSNPs | diseases |
| 2 | nsv428474 | chr6:24714157-24797977 | Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 65 gene(s) | inside rSNPs | diseases |
| 3 | nsv965630 | chr6:24745410-24767271 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS | TF binding regionChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:24754000-24761400 | Weak transcription | Stomach Mucosa | stomach |
| 2 | chr6:24756000-24761800 | Weak transcription | Hela-S3 | cervix |
| 3 | chr6:24757000-24761200 | Weak transcription | K562 | blood |
