Variant report
| Variant | rs12003673 |
|---|---|
| Chromosome Location | chr9:96137408-96137409 |
| allele | G/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:1)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:1 , 50 per page) page:
1
| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | FOXA1 | chr9:96137078-96137483 | T-47D | breast: | n/a | chr9:96137323-96137338 |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr9:96136909..96139271-chr9:96213401..96215594,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| RNU6-829P | TF binding region |
| ENSG00000188938 | Chromatin interaction |
| ENSG00000048828 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:10)
| rs_ID | r2[population] |
|---|---|
| rs10122846 | 0.81[AMR][1000 genomes];0.95[ASN][1000 genomes] |
| rs10512221 | 1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap] |
| rs10761220 | 0.87[CHB][hapmap] |
| rs10992707 | 1.00[CEU][hapmap];0.84[CHB][hapmap];0.82[JPT][hapmap] |
| rs13289948 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes] |
| rs1931371 | 0.86[CHB][hapmap] |
| rs35925631 | 1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs3892585 | 0.86[CHB][hapmap] |
| rs4633120 | 1.00[CEU][hapmap];0.84[CHB][hapmap];0.82[JPT][hapmap] |
| rs7021710 | 1.00[YRI][hapmap];0.91[AFR][1000 genomes] |
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 | nsv893576 | chr9:95789960-96158277 | Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 29 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
