Variant report
| Variant | rs6839288 |
|---|---|
| Chromosome Location | chr4:173369011-173369012 |
| allele | C/T |
| 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:27)
| rs_ID | r2[population] |
|---|---|
| rs1484021 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes] |
| rs17058382 | 1.00[AMR][1000 genomes] |
| rs17058411 | 1.00[AMR][1000 genomes] |
| rs17058602 | 1.00[AMR][1000 genomes] |
| rs2101251 | 1.00[AMR][1000 genomes] |
| rs2124204 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs234125 | 1.00[ASN][1000 genomes] |
| rs335967 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs335988 | 1.00[JPT][hapmap] |
| rs337032 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs337981 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs338005 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs338006 | 1.00[ASN][1000 genomes] |
| rs338049 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs338052 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs338054 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs338055 | 1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes] |
| rs338056 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs538624 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs6840904 | 1.00[AMR][1000 genomes] |
| rs6856936 | 1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap] |
| rs7656178 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs7686403 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs7686995 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs7688360 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap] |
| rs7689558 | 1.00[AMR][1000 genomes] |
| rs7690422 | 1.00[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1031592 | chr4:173112542-173662991 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| 2 | nsv537359 | chr4:173112542-173662991 | Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| 3 | nsv534293 | chr4:173121379-173606082 | Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| 4 | nsv880416 | chr4:173287422-173388217 | Enhancers Weak transcription ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 5 | nsv1031327 | chr4:173306405-173465248 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS | TF binding regionCpG islandChromatin interactive region | 2 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs6839288 | ITPKB | trans | lymphoblastoid | seeQTL |
| rs6839288 | RASIP1 | trans | lymphoblastoid | seeQTL |
Chromatin state (count:0 , 50 per page) page:
| No data |
