Variant report
| Variant | rs6461264 |
|---|---|
| Chromosome Location | chr7:16584470-16584471 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr17:61904198..61906383-chr7:16582501..16585104,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000108592 | Chromatin interaction |
| ENSG00000087191 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:9)
| rs_ID | r2[population] |
|---|---|
| rs12669346 | 0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs1404171 | 0.89[CEU][hapmap];0.95[GIH][hapmap];0.85[TSI][hapmap];0.81[EUR][1000 genomes] |
| rs1404172 | 0.91[CEU][hapmap];0.81[CHB][hapmap];0.81[EUR][1000 genomes] |
| rs1524360 | 0.80[EUR][1000 genomes] |
| rs1524361 | 0.91[CEU][hapmap];0.81[EUR][1000 genomes] |
| rs1524362 | 0.92[CEU][hapmap];0.81[EUR][1000 genomes] |
| rs1524363 | 0.92[CEU][hapmap];0.81[EUR][1000 genomes] |
| rs17169536 | 0.81[CHB][hapmap] |
| rs7781903 | 0.92[CEU][hapmap];0.95[GIH][hapmap];0.85[TSI][hapmap];0.81[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1016642 | chr7:15884061-16799788 | Genic enhancers Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 56 gene(s) | inside rSNPs | diseases |
| 2 | nsv1028125 | chr7:16529160-16847225 | Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 40 gene(s) | inside rSNPs | diseases |
| 3 | nsv887757 | chr7:16568529-16615490 | Enhancers Active TSS Weak transcription Flanking Active TSS | TF binding regionCpG islandChromatin interactive region | 4 gene(s) | inside rSNPs | diseases |
| 4 | nsv520493 | chr7:16581890-16584470 | Enhancers Weak transcription | Chromatin interactive region | 2 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs6461264 | ARL4A | cis | parietal | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
