Variant report
| Variant | rs10734372 |
|---|---|
| Chromosome Location | chr11:26090748-26090749 |
| allele | A/G |
| 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:36)
| rs_ID | r2[population] |
|---|---|
| rs10732479 | 1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap] |
| rs10734366 | 1.00[JPT][hapmap] |
| rs10742127 | 1.00[JPT][hapmap] |
| rs10742128 | 1.00[JPT][hapmap] |
| rs10834897 | 1.00[JPT][hapmap] |
| rs10834898 | 1.00[JPT][hapmap] |
| rs11029135 | 0.81[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs11029193 | 0.81[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs11029202 | 0.82[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs1387500 | 1.00[AMR][1000 genomes] |
| rs1387501 | 1.00[AMR][1000 genomes] |
| rs1387503 | 1.00[JPT][hapmap] |
| rs1387506 | 1.00[JPT][hapmap] |
| rs1387507 | 1.00[JPT][hapmap] |
| rs1489503 | 0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs1489504 | 0.92[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs1489507 | 0.87[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs3103401 | 1.00[AMR][1000 genomes] |
| rs3114678 | 0.91[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs3114680 | 0.91[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs3114689 | 0.81[AMR][1000 genomes];0.92[ASN][1000 genomes] |
| rs6484193 | 1.00[JPT][hapmap] |
| rs6484195 | 0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs7101817 | 1.00[JPT][hapmap] |
| rs7105188 | 1.00[JPT][hapmap] |
| rs7105339 | 1.00[JPT][hapmap] |
| rs7115939 | 1.00[JPT][hapmap] |
| rs7116083 | 1.00[JPT][hapmap] |
| rs7119696 | 1.00[JPT][hapmap] |
| rs7123678 | 1.00[JPT][hapmap] |
| rs7930886 | 0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs7948850 | 0.81[AMR][1000 genomes];0.92[ASN][1000 genomes] |
| rs988513 | 1.00[JPT][hapmap] |
| rs988514 | 1.00[JPT][hapmap] |
| rs988515 | 1.00[JPT][hapmap] |
| rs988516 | 1.00[JPT][hapmap] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | esv2760599 | chr11:25186984-26159450 | Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 2 | nsv1046507 | chr11:25469712-26111707 | Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 3 | nsv1041778 | chr11:25898574-26098141 | Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 4 | nsv972958 | chr11:26087208-26094251 | Weak transcription Enhancers | n/a | n/a | inside rSNPs | diseases |
mRNA abundance (count:6)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs10734372 | GUCA1C | trans | brain | seeQTL |
| rs10734372 | CRX | trans | brain | seeQTL |
| rs10734372 | LRTM1 | trans | brain | seeQTL |
| rs10734372 | TTR | trans | brain | seeQTL |
| rs10734372 | SH2D2A | trans | brain | seeQTL |
| rs10734372 | SLC5A7 | trans | brain | seeQTL |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr11:26079600-26091600 | Weak transcription | Fetal Kidney | kidney |
| 2 | chr11:26082400-26094200 | Weak transcription | Foreskin Keratinocyte Primary Cells skin03 | Skin |
| 3 | chr11:26090000-26091000 | Enhancers | Foreskin Melanocyte Primary Cells skin03 | Skin |
