Variant report
| Variant | rs73407231 |
|---|---|
| Chromosome Location | chr6:28803331-28803332 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:12)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:12 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr6:28800000..28803653-chr6:28805218..28808820,5 | K562 | blood: | |
| 2 | chr6:28733597..28735281-chr6:28802392..28805024,2 | K562 | blood: | |
| 3 | chr6:28802089..28805031-chr6:28809427..28811386,2 | K562 | blood: | |
| 4 | chr6:28715456..28717340-chr6:28801713..28804501,2 | K562 | blood: | |
| 5 | chr6:28803282..28808663-chr6:28829877..28836776,13 | K562 | blood: | |
| 6 | chr6:28803282..28808495-chr6:28830531..28834946,8 | K562 | blood: | |
| 7 | chr6:28795106..28798170-chr6:28801173..28804341,4 | K562 | blood: | |
| 8 | chr15:40734249..40736119-chr6:28802830..28804653,2 | K562 | blood: | |
| 9 | chr6:28802885..28808466-chr6:28831550..28836351,8 | MCF-7 | breast: | |
| 10 | chr6:28802724..28808694-chr6:28856997..28865691,21 | K562 | blood: | |
| 11 | chr6:28802648..28804647-chr6:28992875..28994598,2 | K562 | blood: | |
| 12 | chr6:28801618..28804388-chr6:28983054..28984845,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000233366 | Chromatin interaction |
| ENSG00000225595 | Chromatin interaction |
| ENSG00000225173 | Chromatin interaction |
| ENSG00000224157 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:22)
| rs_ID | r2[population] |
|---|---|
| rs10428805 | 0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs11756140 | 1.00[ASN][1000 genomes] |
| rs11758303 | 1.00[ASN][1000 genomes] |
| rs12110866 | 1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs58377234 | 1.00[EUR][1000 genomes] |
| rs59303422 | 1.00[ASN][1000 genomes] |
| rs6456858 | 1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6917227 | 1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6924101 | 0.86[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6925173 | 1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6931486 | 1.00[EUR][1000 genomes] |
| rs6934771 | 1.00[EUR][1000 genomes] |
| rs6939310 | 0.86[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs73407222 | 0.86[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs73407237 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs73407240 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs73407247 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs73407261 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs73408940 | 1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7738297 | 1.00[ASN][1000 genomes] |
| rs7775657 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs9767253 | 1.00[EUR][1000 genomes];1.00[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 | nsv534089 | chr6:28636972-28841640 | Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 43 gene(s) | inside rSNPs | diseases |
| 2 | nsv883518 | chr6:28792477-28911802 | Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 56 gene(s) | inside rSNPs | diseases |
| 3 | nsv883519 | chr6:28792477-28936556 | Transcr. at gene 5' and 3' Genic enhancers Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 57 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:28802200-28805000 | Weak transcription | K562 | blood |
| 2 | chr6:28802400-28805200 | Weak transcription | iPS DF 19.11 Cell Line | embryonic stem cell |
