Variant report
| Variant | rs9595776 |
|---|---|
| Chromosome Location | chr13:48336981-48336982 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:8)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:8 , 50 per page) page:
1
| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | GATA3 | chr13:48336768-48337163 | T-47D | breast: | n/a | n/a |
| 2 | FOXA1 | chr13:48336830-48337108 | T-47D | breast: | n/a | n/a |
| 3 | ESR1 | chr13:48336838-48337143 | T-47D | breast: | n/a | n/a |
| 4 | ESR1 | chr13:48336787-48337159 | T-47D | breast: | n/a | n/a |
| 5 | FOXA1 | chr13:48336808-48337094 | T-47D | breast: | n/a | n/a |
| 6 | ESR1 | chr13:48336760-48337249 | T-47D | breast: | n/a | n/a |
| 7 | ESR1 | chr13:48336777-48337170 | T-47D | breast: | n/a | n/a |
| 8 | GATA3 | chr13:48336836-48337124 | T-47D | breast: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| NAP1L4P3 | TF binding region |
rSNPs within LD-proxies of this variant (count:7)
| rs_ID | r2[population] |
|---|---|
| rs17070772 | 0.94[EUR][1000 genomes] |
| rs7981641 | 0.82[AFR][1000 genomes] |
| rs7988197 | 0.81[AFR][1000 genomes] |
| rs7996422 | 0.82[AFR][1000 genomes] |
| rs8002892 | 0.82[AFR][1000 genomes] |
| rs9595770 | 0.81[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs9595780 | 0.87[AMR][1000 genomes];0.97[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 | nsv832600 | chr13:48183118-48341417 | Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 2 | esv3510679 | chr13:48236624-48498185 | Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 3 | esv3510680 | chr13:48236624-48498185 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 4 | nsv561589 | chr13:48251736-48420218 | Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs9595776 | LPAR6 | cis | lymphoblastoid | seeQTL |
Chromatin state (count:0 , 50 per page) page:
| No data |
