Variant report
| Variant | rs2900884 |
|---|---|
| Chromosome Location | chr1:168900288-168900289 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr1:168892480..168894415-chr1:168900129..168902530,2 | K562 | blood: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:18)
| rs_ID | r2[population] |
|---|---|
| rs10737544 | 1.00[CHB][hapmap];0.89[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.89[ASN][1000 genomes] |
| rs10800396 | 0.85[ASN][1000 genomes] |
| rs10919019 | 1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes] |
| rs12096067 | 0.84[EUR][1000 genomes] |
| rs12128029 | 0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes] |
| rs1407478 | 0.88[ASN][1000 genomes] |
| rs1407481 | 0.90[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs2093486 | 0.83[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs4656169 | 0.98[ASN][1000 genomes] |
| rs4656170 | 0.87[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs4656625 | 0.89[ASN][1000 genomes] |
| rs4656626 | 0.99[ASN][1000 genomes] |
| rs4656627 | 1.00[ASN][1000 genomes] |
| rs4656628 | 0.82[AMR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6427160 | 0.91[JPT][hapmap];0.96[TSI][hapmap];0.86[EUR][1000 genomes] |
| rs6427161 | 0.88[ASN][1000 genomes] |
| rs6692447 | 0.89[ASN][1000 genomes] |
| rs67169143 | 0.89[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:1 , 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 | nsv869415 | chr1:168467284-169153863 | Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 44 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs2900884 | XCL1 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr1:168896400-168901600 | Weak transcription | Fetal Heart | heart |
