Variant report
| Variant | rs11771549 |
|---|---|
| Chromosome Location | chr7:129147485-129147486 |
| allele | G/T |
| 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 | chr7:129145078..129150359-chr7:129249764..129252550,4 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000273329 | Chromatin interaction |
| ENSG00000106459 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:32)
| rs_ID | r2[population] |
|---|---|
| rs11761878 | 0.86[CEU][hapmap];0.89[TSI][hapmap];0.85[EUR][1000 genomes] |
| rs11761943 | 0.86[CEU][hapmap];0.85[EUR][1000 genomes] |
| rs11768964 | 0.85[CHB][hapmap] |
| rs11771705 | 1.00[JPT][hapmap] |
| rs13223151 | 1.00[JPT][hapmap] |
| rs1348750 | 1.00[JPT][hapmap] |
| rs1349402 | 1.00[JPT][hapmap] |
| rs1349403 | 1.00[JPT][hapmap] |
| rs17552411 | 1.00[JPT][hapmap] |
| rs17552570 | 1.00[JPT][hapmap] |
| rs2081303 | 0.86[CEU][hapmap];0.83[EUR][1000 genomes] |
| rs2402952 | 1.00[JPT][hapmap] |
| rs2598183 | 1.00[CHB][hapmap] |
| rs56394855 | 0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs581829 | 0.85[CHB][hapmap] |
| rs587499 | 1.00[CHB][hapmap] |
| rs613068 | 0.85[CHB][hapmap] |
| rs639605 | 0.85[CHB][hapmap] |
| rs655239 | 0.85[CHB][hapmap] |
| rs657664 | 0.85[CHB][hapmap];0.82[ASN][1000 genomes] |
| rs676947 | 0.85[CHB][hapmap] |
| rs690872 | 0.85[CHB][hapmap] |
| rs691303 | 1.00[CHB][hapmap] |
| rs691325 | 1.00[CHB][hapmap] |
| rs692132 | 0.85[CHB][hapmap] |
| rs6958637 | 1.00[JPT][hapmap] |
| rs6971551 | 1.00[JPT][hapmap] |
| rs6974105 | 1.00[JPT][hapmap] |
| rs6977752 | 1.00[JPT][hapmap] |
| rs729791 | 1.00[JPT][hapmap] |
| rs896157 | 1.00[JPT][hapmap] |
| rs896158 | 1.00[JPT][hapmap] |
Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv831128 | chr7:129063040-129240800 | Weak transcription Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 14 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:3)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs11771549 | FAM198B | trans | brain | seeQTL |
| rs11771549 | FAM40B | cis | parietal | SCAN |
| rs11771549 | CPA4 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr7:129143000-129148800 | Weak transcription | Right Atrium | heart |
| 2 | chr7:129143200-129154000 | Weak transcription | iPS DF 19.11 Cell Line | embryonic stem cell |
