Variant report
| Variant | rs7872931 |
|---|---|
| Chromosome Location | chr9:96970197-96970198 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:11)
- CpG islands (count:0)
- Chromatin interactive region (count:2)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:11 , 50 per page) page:
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| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | POLR2A | chr9:96970035-96970340 | H1-neurons | neurons: | n/a | n/a |
| 2 | TRIM28 | chr9:96970065-96970399 | K562 | blood: | n/a | n/a |
| 3 | CBX3 | chr9:96970046-96970471 | K562 | blood: | n/a | n/a |
| 4 | KAP1 | chr9:96970038-96970739 | K562 | blood: | n/a | n/a |
| 5 | TRIM28 | chr9:96970044-96970508 | K562 | blood: | n/a | n/a |
| 6 | ZNF384 | chr9:96970109-96970507 | K562 | blood: | n/a | n/a |
| 7 | POLR2A | chr9:96970035-96970399 | H1-neurons | neurons: | n/a | n/a |
| 8 | TEAD4 | chr9:96970123-96970356 | K562 | blood: | n/a | n/a |
| 9 | SETDB1 | chr9:96970162-96970503 | U2OS | brain: | n/a | n/a |
| 10 | ZNF143 | chr9:96970130-96970406 | K562 | blood: | n/a | n/a |
| 11 | CBX3 | chr9:96970118-96970424 | K562 | blood: | n/a | n/a |
| No data |
(count:2 , 50 per page) page:
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| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| MIRLET7DHG | TF binding region |
| ENSG00000269946 | Chromatin interaction |
| ENSG00000158079 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:18)
| rs_ID | r2[population] |
|---|---|
| rs10114341 | 0.83[CHD][hapmap] |
| rs10118003 | 0.83[CHD][hapmap] |
| rs10512231 | 1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.92[LWK][hapmap];0.86[MKK][hapmap];0.86[AFR][1000 genomes] |
| rs10993068 | 1.00[CHB][hapmap];0.88[CHD][hapmap] |
| rs10993090 | 0.84[AFR][1000 genomes];0.90[ASN][1000 genomes] |
| rs10993094 | 0.90[ASN][1000 genomes] |
| rs12338885 | 1.00[CHB][hapmap];0.82[JPT][hapmap];0.87[YRI][hapmap];0.90[ASN][1000 genomes] |
| rs12339587 | 0.88[AFR][1000 genomes] |
| rs12341175 | 0.83[AFR][1000 genomes] |
| rs12345069 | 1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs12347752 | 0.90[ASN][1000 genomes] |
| rs13440059 | 1.00[CHB][hapmap];0.88[CHD][hapmap];0.96[GIH][hapmap];0.85[JPT][hapmap];0.86[MKK][hapmap];0.83[AFR][1000 genomes] |
| rs1421135 | 1.00[CHB][hapmap];0.88[CHD][hapmap];0.96[GIH][hapmap];0.85[JPT][hapmap];0.85[LWK][hapmap] |
| rs55653563 | 0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs62578780 | 0.86[AFR][1000 genomes] |
| rs62578801 | 0.86[AFR][1000 genomes];0.90[ASN][1000 genomes] |
| rs62578804 | 0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs7871468 | 1.00[CHB][hapmap] |
Variant overlapped rSNPs/rCNVs (count:3 , 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 | nsv482457 | chr9:96813852-96996170 | Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 217 gene(s) | inside rSNPs | diseases |
| 2 | nsv831655 | chr9:96834042-97042009 | Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 218 gene(s) | inside rSNPs | diseases |
| 3 | esv3394266 | chr9:96935210-97045514 | Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 195 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs7872931 | HIATL1 | cis | lymphoblastoid | seeQTL |
| rs7872931 | CENPP | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr9:96961200-96973600 | Weak transcription | Breast Myoepithelial Primary Cells | Breast |
| 2 | chr9:96963000-96970200 | Weak transcription | Gastric | stomach |
| 3 | chr9:96963200-96971200 | Weak transcription | Aorta | Aorta |
