Variant report
| Variant | rs10919019 |
|---|---|
| Chromosome Location | chr1:168895513-168895514 |
| allele | A/T |
| 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:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr1:168894738..168897178-chr1:169075088..169076984,3 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000143153 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:19)
| rs_ID | r2[population] |
|---|---|
| rs10737544 | 1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes] |
| rs10800396 | 0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes] |
| rs12128029 | 0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes] |
| rs1407478 | 0.88[ASN][1000 genomes] |
| rs1407481 | 0.92[ASN][1000 genomes] |
| rs2093486 | 0.83[ASN][1000 genomes] |
| rs2146205 | 0.82[TSI][hapmap] |
| rs2900884 | 0.97[ASN][1000 genomes] |
| rs4656169 | 0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs4656170 | 0.83[ASN][1000 genomes] |
| rs4656625 | 0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs4656626 | 0.99[ASN][1000 genomes] |
| rs4656627 | 0.97[ASN][1000 genomes] |
| rs4656628 | 0.97[ASN][1000 genomes] |
| rs6427160 | 0.91[JPT][hapmap] |
| rs6427161 | 0.88[ASN][1000 genomes] |
| rs6692447 | 0.91[ASN][1000 genomes] |
| rs67169143 | 0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs973608 | 0.87[CEU][hapmap] |
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 | 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:3)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs10919019 | MAEL | cis | parietal | SCAN |
| rs10919019 | ALDH9A1 | cis | cerebellum | SCAN |
| rs10919019 | XCL1 | cis | parietal | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
