Variant report
| Variant | rs7936425 |
|---|---|
| Chromosome Location | chr11:46190213-46190214 |
| allele | A/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 | chr11:46184668..46187196-chr11:46188991..46190745,2 | K562 | blood: | |
| 2 | chr11:46181536..46183088-chr11:46188109..46190575,2 | K562 | blood: | |
| 3 | chr11:46189828..46190662-chr5:81047167..81047862,2 | Hela-S3 | cervix: | |
| 4 | chr11:46142984..46144774-chr11:46189496..46191053,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000145687 | Chromatin interaction |
| ENSG00000135365 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:11)
| rs_ID | r2[population] |
|---|---|
| rs10160437 | 0.96[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs12282151 | 0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs12283653 | 0.80[CHD][hapmap];0.82[TSI][hapmap] |
| rs1984777 | 0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs2130474 | 0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs3935366 | 0.88[ASW][hapmap];0.81[MKK][hapmap] |
| rs4620693 | 0.94[CHB][hapmap];0.91[ASN][1000 genomes] |
| rs7939067 | 0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs7943379 | 0.92[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs7949325 | 0.81[ASN][1000 genomes] |
| rs9300054 | 0.80[AFR][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 | nsv1051344 | chr11:46188818-46306447 | Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 47 gene(s) | inside rSNPs | diseases |
| 2 | nsv541028 | chr11:46188818-46306447 | Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 47 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs7936425 | ARHGAP1 | cis | parietal | SCAN |
| rs7936425 | MTCH2 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr11:46184600-46192200 | Weak transcription | Pancreas | Pancrea |
