Variant report
| Variant | rs17573136 |
|---|---|
| Chromosome Location | chr5:154505097-154505098 |
| allele | G/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:22)
| rs_ID | r2[population] |
|---|---|
| rs10037186 | 0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes] |
| rs10050521 | 0.92[ASN][1000 genomes] |
| rs10050836 | 0.82[ASN][1000 genomes] |
| rs1005789 | 0.93[ASN][1000 genomes] |
| rs10066196 | 0.82[ASN][1000 genomes] |
| rs10066219 | 0.82[ASN][1000 genomes] |
| rs10066223 | 0.82[ASN][1000 genomes] |
| rs10078699 | 0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs1008795 | 0.90[ASN][1000 genomes] |
| rs10476812 | 0.92[ASN][1000 genomes] |
| rs11167712 | 0.92[ASN][1000 genomes] |
| rs13155597 | 0.86[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes] |
| rs1564885 | 0.97[ASN][1000 genomes] |
| rs17572520 | 0.90[JPT][hapmap] |
| rs35161960 | 0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes] |
| rs4958779 | 0.91[ASN][1000 genomes] |
| rs6580136 | 0.82[ASN][1000 genomes] |
| rs6897414 | 0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs7703459 | 0.93[ASN][1000 genomes] |
| rs7703759 | 0.86[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes] |
| rs9324804 | 0.87[ASN][1000 genomes] |
| rs9324805 | 0.87[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv883059 | chr5:154457905-154556230 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 2 | nsv462492 | chr5:154489393-154523910 | Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 3 | nsv600091 | chr5:154489393-154523910 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs17573136 | MFAP3 | cis | cerebellum | SCAN |
| rs17573136 | ANXA6 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr5:154504800-154505400 | Enhancers | Psoas Muscle | Psoas |
| 2 | chr5:154505000-154506800 | Enhancers | Fetal Heart | heart |
