Variant report
| Variant | rs1393048 |
|---|---|
| Chromosome Location | chr3:190612827-190612828 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:6)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:6 , 50 per page) page:
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| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | FOXA1 | chr3:190612707-190613015 | HepG2 | liver: | n/a | n/a |
| 2 | FOXA1 | chr3:190612713-190612995 | HepG2 | liver: | n/a | n/a |
| 3 | FOXA2 | chr3:190612788-190612961 | HepG2 | liver: | n/a | n/a |
| 4 | FOXA1 | chr3:190612751-190613027 | HepG2 | liver: | n/a | n/a |
| 5 | CEBPB | chr3:190612784-190612984 | HepG2 | liver: | n/a | chr3:190612900-190612911 |
| 6 | FOXA1 | chr3:190612763-190613023 | HepG2 | liver: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| GMNC | TF binding region |
rSNPs within LD-proxies of this variant (count:13)
| rs_ID | r2[population] |
|---|---|
| rs10937448 | 0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs10937450 | 0.81[ASN][1000 genomes] |
| rs13065568 | 0.81[ASN][1000 genomes] |
| rs13067365 | 0.87[ASN][1000 genomes] |
| rs13070564 | 0.86[ASN][1000 genomes] |
| rs13075101 | 0.91[ASN][1000 genomes] |
| rs13081641 | 0.82[ASN][1000 genomes] |
| rs34165430 | 0.86[ASN][1000 genomes] |
| rs34859790 | 0.81[ASN][1000 genomes] |
| rs6799249 | 0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes] |
| rs9290957 | 0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs9852162 | 0.80[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs9868955 | 0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 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 | nsv916316 | chr3:190308450-190801722 | Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 19 gene(s) | inside rSNPs | diseases |
| 2 | nsv878095 | chr3:190586181-190657163 | Enhancers Weak transcription Bivalent Enhancer | TF binding regionCpG islandChromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
| 3 | nsv878096 | chr3:190586181-190675956 | Enhancers Bivalent Enhancer Active TSS Weak transcription | TF binding regionCpG islandChromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
| 4 | nsv878097 | chr3:190597323-190650051 | Weak transcription Enhancers Bivalent Enhancer | TF binding regionChromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
