Variant report
| Variant | rs6859274 |
|---|---|
| Chromosome Location | chr5:164399837-164399838 |
| allele | A/C |
| 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 | JUND | chr5:164399828-164400596 | T-47D | breast: | n/a | n/a |
| 2 | GATA3 | chr5:164399517-164400497 | T-47D | breast: | n/a | n/a |
| 3 | FOXA1 | chr5:164399534-164400458 | T-47D | breast: | n/a | n/a |
| 4 | EP300 | chr5:164399591-164400489 | T-47D | breast: | n/a | n/a |
| 5 | JUND | chr5:164399531-164400682 | T-47D | breast: | n/a | n/a |
| 6 | EP300 | chr5:164399540-164400562 | T-47D | breast: | n/a | n/a |
| 7 | FOXA1 | chr5:164399493-164400479 | T-47D | breast: | n/a | n/a |
| 8 | GATA3 | chr5:164399530-164400488 | T-47D | breast: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000241956 | TF binding region |
rSNPs within LD-proxies of this variant (count:11)
| rs_ID | r2[population] |
|---|---|
| rs13173293 | 0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs35406848 | 0.93[ASN][1000 genomes] |
| rs35411130 | 0.92[ASN][1000 genomes] |
| rs36057000 | 0.92[ASN][1000 genomes] |
| rs4131412 | 0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs4530780 | 1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs4582301 | 0.87[ASN][1000 genomes] |
| rs6420121 | 0.96[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.86[TSI][hapmap];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs7448333 | 0.92[ASN][1000 genomes] |
| rs7448803 | 0.86[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs9790906 | 0.80[EUR][1000 genomes];0.90[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv995060 | chr5:163660200-164620500 | Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 11 gene(s) | inside rSNPs | diseases |
| 2 | nsv528624 | chr5:164319435-164701201 | Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 3 | nsv600242 | chr5:164391457-164466785 | Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs6859274 | WWC1 | cis | cerebellum | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
