Variant report
| Variant | rs919190 |
|---|---|
| Chromosome Location | chr2:171755731-171755732 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:24)
| rs_ID | r2[population] |
|---|---|
| rs10210883 | 0.82[JPT][hapmap] |
| rs1045327 | 1.00[JPT][hapmap] |
| rs10460312 | 0.95[EUR][1000 genomes] |
| rs10930446 | 0.99[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs11896607 | 1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs12467996 | 0.87[EUR][1000 genomes] |
| rs13002517 | 1.00[JPT][hapmap] |
| rs13003218 | 1.00[JPT][hapmap] |
| rs13016705 | 1.00[JPT][hapmap] |
| rs1541781 | 0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs2356238 | 0.86[EUR][1000 genomes] |
| rs34532258 | 0.85[ASN][1000 genomes] |
| rs35230775 | 0.85[ASN][1000 genomes] |
| rs3770442 | 1.00[JPT][hapmap];0.85[ASN][1000 genomes] |
| rs4233833 | 0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs4233835 | 0.88[AFR][1000 genomes];0.80[EUR][1000 genomes] |
| rs4667666 | 0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs6729098 | 0.87[EUR][1000 genomes] |
| rs6758331 | 1.00[JPT][hapmap] |
| rs6761759 | 1.00[JPT][hapmap] |
| rs6761889 | 1.00[JPT][hapmap] |
| rs67796509 | 0.82[AFR][1000 genomes];0.82[EUR][1000 genomes] |
| rs731692 | 1.00[JPT][hapmap] |
| rs7558586 | 0.95[EUR][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 | nsv431801 | chr2:171721493-171966493 | ZNF genes & repeats Strong transcription Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 34 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs919190 | TLK1 | Cis_1M | lymphoblastoid | RTeQTL |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr2:171751000-171761800 | Weak transcription | iPS DF 19.11 Cell Line | embryonic stem cell |
