Variant report
| Variant | rs72832611 |
|---|---|
| Chromosome Location | chr6:24737791-24737792 |
| 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 | chr6:24736323..24738975-chr6:24757709..24759492,2 | K562 | blood: | |
| 2 | chr6:24720377..24722365-chr6:24737206..24739531,2 | MCF-7 | breast: | |
| 3 | chr6:24719100..24724705-chr6:24735495..24739885,7 | K562 | blood: | |
| 4 | chr6:24735694..24737854-chr6:24742539..24745038,3 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000112308 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:12)
| rs_ID | r2[population] |
|---|---|
| rs12190789 | 0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs12202375 | 0.89[EUR][1000 genomes] |
| rs12203056 | 0.82[ASN][1000 genomes] |
| rs17491647 | 0.80[AMR][1000 genomes] |
| rs2294687 | 0.80[AMR][1000 genomes] |
| rs2328829 | 0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs4466246 | 0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs6909127 | 0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs72830600 | 0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs72832608 | 1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs72832613 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs7774610 | 0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 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 |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs72832611 | C6orf62 | cis | lung | GTEx |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:24737000-24738800 | Weak transcription | Stomach Mucosa | stomach |
