Variant report
| Variant | rs1425220 |
|---|---|
| Chromosome Location | chr11:127671315-127671316 |
| 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:28)
| rs_ID | r2[population] |
|---|---|
| rs10893727 | 0.85[ASN][1000 genomes] |
| rs10893728 | 0.85[ASN][1000 genomes] |
| rs10893739 | 0.96[ASN][1000 genomes] |
| rs10893741 | 0.96[ASN][1000 genomes] |
| rs10893750 | 0.94[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10893752 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10893754 | 0.93[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs11221020 | 0.85[ASN][1000 genomes] |
| rs11221033 | 0.92[ASN][1000 genomes] |
| rs11221034 | 0.92[ASN][1000 genomes] |
| rs11221036 | 0.93[ASN][1000 genomes] |
| rs11221037 | 0.96[ASN][1000 genomes] |
| rs11221044 | 0.82[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs11221047 | 1.00[ASN][1000 genomes] |
| rs11221048 | 0.88[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs11221049 | 0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs11221055 | 0.93[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs11221056 | 0.94[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs12791553 | 0.88[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs12800826 | 0.82[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1364789 | 0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1425218 | 0.94[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1425219 | 0.94[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1425221 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs34815995 | 0.83[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs61908319 | 0.99[ASN][1000 genomes] |
| rs73576478 | 0.82[AFR][1000 genomes] |
| rs970534 | 0.93[EUR][1000 genomes];1.00[ASN][1000 genomes] |
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 | nsv898445 | chr11:127377733-127713173 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 2 | nsv1037485 | chr11:127582314-128301106 | Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 3 | nsv556535 | chr11:127656196-127737929 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats | Chromatin interactive region | n/a | inside rSNPs | diseases |
| 4 | nsv526723 | chr11:127671315-127796350 | Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription | Chromatin interactive region | n/a | inside rSNPs | diseases |
mRNA abundance (count:4)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs1425220 | ESAM | cis | parietal | SCAN |
| rs1425220 | ROBO4 | cis | parietal | SCAN |
| rs1425220 | ADAMTS8 | cis | cerebellum | SCAN |
| rs1425220 | OR10S1 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr11:127670800-127671400 | Enhancers | Rectal Mucosa Donor 31 | rectum |
