Variant report
| Variant | rs67727346 |
|---|---|
| Chromosome Location | chr1:171068882-171068883 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:4)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:4 , 50 per page) page:
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| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | GABPA | chr1:171068861-171068967 | HepG2 | liver: | n/a | n/a |
| 2 | REST | chr1:171068854-171068948 | PANC-1 | pancreas: | n/a | n/a |
| 3 | FOXA2 | chr1:171068802-171069165 | A549 | lung: | n/a | n/a |
| 4 | GABPA | chr1:171068859-171069009 | HepG2 | liver: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| FMO3 | TF binding region |
rSNPs within LD-proxies of this variant (count:13)
| rs_ID | r2[population] |
|---|---|
| rs10797877 | 0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs10911192 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs12076145 | 0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1920137 | 0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs1920149 | 0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs2064074 | 0.90[EUR][1000 genomes] |
| rs2064076 | 0.92[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs2236872 | 0.82[ASN][1000 genomes] |
| rs2236873 | 0.82[ASN][1000 genomes] |
| rs2281003 | 0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs4916390 | 0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs7886526 | 0.85[EUR][1000 genomes] |
| rs909530 | 0.82[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 | nsv1001228 | chr1:170885787-171452579 | Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 23 gene(s) | inside rSNPs | diseases |
| 2 | esv14617 | chr1:171016086-171726961 | Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 52 gene(s) | inside rSNPs | diseases |
| 3 | nsv1005902 | chr1:171036690-171254916 | Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 14 gene(s) | inside rSNPs | diseases |
| 4 | nsv535203 | chr1:171036690-171254916 | Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 14 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr1:171068800-171069200 | Strong transcription | Liver | Liver |
