Variant report
| Variant | rs17290786 |
|---|---|
| Chromosome Location | chr4:60496226-60496227 |
| allele | G/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:9)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:9 , 50 per page) page:
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| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | JUND | chr4:60495898-60496408 | T-47D | breast: | n/a | n/a |
| 2 | FOXA1 | chr4:60495847-60496423 | T-47D | breast: | n/a | chr4:60496181-60496196 |
| 3 | GATA3 | chr4:60495844-60496392 | T-47D | breast: | n/a | n/a |
| 4 | FOXA1 | chr4:60496030-60496384 | T-47D | breast: | n/a | chr4:60496181-60496196 |
| 5 | JUND | chr4:60495817-60496414 | T-47D | breast: | n/a | n/a |
| 6 | EP300 | chr4:60495857-60496486 | T-47D | breast: | n/a | chr4:60496186-60496196 chr4:60496261-60496275 |
| 7 | STAT3 | chr4:60496110-60496290 | MCF10A-Er-Src | breast: | n/a | n/a |
| 8 | ESR1 | chr4:60495869-60496362 | T-47D | breast: | n/a | n/a |
| 9 | GATA3 | chr4:60495844-60496424 | T-47D | breast: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000249392 | TF binding region |
rSNPs within LD-proxies of this variant (count:3)
| rs_ID | r2[population] |
|---|---|
| rs12500545 | 0.85[AMR][1000 genomes];0.91[ASN][1000 genomes] |
| rs4146056 | 1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs56203225 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page:
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| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv879048 | chr4:60053789-60512343 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 2 | nsv1012748 | chr4:60385942-60546407 | Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 3 | nsv1007782 | chr4:60385942-60550708 | Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 4 | nsv1003847 | chr4:60406832-60538697 | Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 5 | nsv537107 | chr4:60406832-60538697 | Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 6 | esv2760852 | chr4:60424576-60863454 | Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| 7 | nsv1002303 | chr4:60436293-60506680 | Enhancers Weak transcription Flanking Active TSS Active TSS | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 8 | nsv879052 | chr4:60458820-60538549 | Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 9 | nsv967993 | chr4:60480224-60496969 | Enhancers Weak transcription | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 10 | nsv594253 | chr4:60487235-60549283 | Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr4:60495800-60497000 | Enhancers | Liver | Liver |
