Variant report
| Variant | rs10280829 |
|---|---|
| Chromosome Location | chr7:126929604-126929605 |
| 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:
1
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000124171 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:25)
| rs_ID | r2[population] |
|---|---|
| rs10226369 | 1.00[ASN][1000 genomes] |
| rs10226675 | 1.00[JPT][hapmap] |
| rs10227769 | 1.00[JPT][hapmap] |
| rs10234721 | 0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10234740 | 1.00[JPT][hapmap] |
| rs10241965 | 1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10243967 | 1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10259050 | 0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10259156 | 1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10261152 | 1.00[CEU][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10273755 | 1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs11563676 | 0.83[GIH][hapmap];1.00[JPT][hapmap] |
| rs1419388 | 1.00[ASN][1000 genomes] |
| rs17863250 | 1.00[JPT][hapmap] |
| rs17864174 | 1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs17864176 | 1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs17866743 | 1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs17867800 | 1.00[ASN][1000 genomes] |
| rs17867807 | 1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs3779537 | 1.00[JPT][hapmap] |
| rs6947960 | 0.83[GIH][hapmap];1.00[JPT][hapmap] |
| rs6961760 | 0.83[GIH][hapmap];1.00[JPT][hapmap] |
| rs6961944 | 0.83[GIH][hapmap];1.00[JPT][hapmap] |
| rs7805944 | 1.00[JPT][hapmap] |
| rs7806403 | 0.83[GIH][hapmap];1.00[JPT][hapmap] |
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 | nsv889189 | chr7:126699088-126963028 | Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs10280829 | JUP | trans | lymphoblastoid | seeQTL |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr7:126928200-126930600 | Weak transcription | Foreskin Keratinocyte Primary Cells skin02 | Skin |
| 2 | chr7:126929600-126931000 | Enhancers | Fetal Stomach | stomach |
