Variant report
| Variant | rs17131275 |
|---|---|
| Chromosome Location | chr1:70867398-70867399 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:3)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:3 , 50 per page) page:
1
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000118454 | Chromatin interaction |
| ENSG00000197568 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:22)
| rs_ID | r2[population] |
|---|---|
| rs11803222 | 1.00[EUR][1000 genomes] |
| rs17131260 | 1.00[EUR][1000 genomes] |
| rs17131261 | 1.00[YRI][hapmap] |
| rs17131277 | 1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs17131278 | 1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs17131280 | 1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs17131282 | 1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs17131286 | 1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs17131287 | 1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs17131288 | 1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs17131289 | 1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs17131292 | 0.89[YRI][hapmap];0.86[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs59856193 | 1.00[EUR][1000 genomes] |
| rs6413468 | 1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs72914697 | 0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs72914698 | 0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs72916616 | 0.89[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs72916621 | 0.94[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs72929301 | 0.83[AFR][1000 genomes] |
| rs72931203 | 0.83[AFR][1000 genomes] |
| rs72931208 | 0.83[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs7549628 | 1.00[AFR][1000 genomes];1.00[EUR][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 | nsv999219 | chr1:70730556-71014911 | Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 49 gene(s) | inside rSNPs | diseases |
| 2 | nsv830137 | chr1:70765921-70958718 | Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 48 gene(s) | inside rSNPs | diseases |
| 3 | esv1797324 | chr1:70858435-70876569 | Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive region | 13 gene(s) | inside rSNPs | n/a |
| 4 | nsv871100 | chr1:70859397-70928786 | Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 22 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs17131275 | HHLA3 | cis | multi-tissue | Pritchard |
Chromatin state (count:0 , 50 per page) page:
| No data |
