Variant report
| Variant | rs2806971 |
|---|---|
| Chromosome Location | chr13:53653856-53653857 |
| 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:21)
| rs_ID | r2[population] |
|---|---|
| rs12552 | 0.82[CEU][hapmap] |
| rs1343605 | 0.83[EUR][1000 genomes] |
| rs1343607 | 0.94[EUR][1000 genomes];0.88[ASN][1000 genomes] |
| rs1343610 | 0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs1343611 | 0.85[TSI][hapmap] |
| rs1343612 | 0.84[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs1419216 | 0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs1936385 | 0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs2181389 | 0.81[ASN][1000 genomes] |
| rs2246208 | 0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs2759694 | 0.83[ASN][1000 genomes] |
| rs2759698 | 0.83[ASN][1000 genomes] |
| rs2759700 | 0.81[ASN][1000 genomes] |
| rs2806933 | 0.86[EUR][1000 genomes] |
| rs2806946 | 0.97[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs2806949 | 0.94[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs2806950 | 0.94[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs2806974 | 0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs2806978 | 0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs2806982 | 0.82[AMR][1000 genomes];0.89[EUR][1000 genomes] |
| rs4886119 | 0.85[TSI][hapmap] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv530719 | chr13:53173014-53675953 | Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 26 gene(s) | inside rSNPs | diseases |
| 2 | esv3440613 | chr13:53307609-53671072 | Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 10 gene(s) | inside rSNPs | diseases |
| 3 | nsv832613 | chr13:53524319-53687188 | Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs2806971 | KCNRG | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr13:53639200-53654800 | Weak transcription | Duodenum Mucosa | Duodenum |
| 2 | chr13:53651000-53656200 | Strong transcription | Primary neutrophils fromperipheralblood | blood |
