Variant report
| Variant | rs2746149 |
|---|---|
| Chromosome Location | chr6:29435355-29435356 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:2)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:2 , 50 per page) page:
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| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000225797 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:15)
| rs_ID | r2[population] |
|---|---|
| rs11968213 | 1.00[ASN][1000 genomes] |
| rs1233480 | 0.84[EUR][1000 genomes] |
| rs1233493 | 1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1233494 | 1.00[EUR][1000 genomes] |
| rs1234844 | 1.00[EUR][1000 genomes] |
| rs2023463 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs2143668 | 0.98[EUR][1000 genomes] |
| rs2523431 | 0.98[EUR][1000 genomes] |
| rs2523432 | 0.90[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs2523443 | 0.98[EUR][1000 genomes] |
| rs2746150 | 0.98[EUR][1000 genomes] |
| rs3094569 | 0.87[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs404240 | 0.89[EUR][1000 genomes] |
| rs408623 | 0.89[EUR][1000 genomes] |
| rs61730667 | 1.00[ASN][1000 genomes] |
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 | nsv830624 | chr6:29274525-29445565 | Enhancers Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 11 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:12)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs2746149 | ZFP57 | cis | multi-tissue | Pritchard |
| rs2746149 | HIST1H2BM | cis | cerebellum | SCAN |
| rs2746149 | HIST1H2BC | cis | parietal | SCAN |
| rs2746149 | HLA-A | cis | multi-tissue | Pritchard |
| rs2746149 | HLA-A | cis | brain | seeQTL |
| rs2746149 | HLA-C | cis | multi-tissue | Pritchard |
| rs2746149 | BTN2A1 | cis | parietal | SCAN |
| rs2746149 | BTN3A2 | cis | multi-tissue | Pritchard |
| rs2746149 | ZNF323 | cis | parietal | SCAN |
| rs2746149 | HLA-H | cis | multi-tissue | Pritchard |
| rs2746149 | HLA-A | trans | brain | seeQTL |
| rs2746149 | HLA-G | cis | multi-tissue | Pritchard |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:29430000-29436600 | Weak transcription | Pancreas | Pancrea |
