Variant report
| Variant | rs170872 |
|---|---|
| Chromosome Location | chr4:103135158-103135159 |
| allele | A/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:29)
| rs_ID | r2[population] |
|---|---|
| rs151305 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs151368 | 1.00[AFR][1000 genomes] |
| rs151375 | 0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs151377 | 0.86[AMR][1000 genomes] |
| rs151394 | 1.00[YRI][hapmap];1.00[AFR][1000 genomes] |
| rs151395 | 1.00[YRI][hapmap];1.00[AFR][1000 genomes] |
| rs151418 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs151419 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs151420 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs367659 | 1.00[AFR][1000 genomes] |
| rs389974 | 1.00[AFR][1000 genomes] |
| rs439757 | 1.00[AFR][1000 genomes] |
| rs450780 | 1.00[AFR][1000 genomes] |
| rs456877 | 1.00[AFR][1000 genomes] |
| rs458318 | 1.00[AFR][1000 genomes] |
| rs458771 | 1.00[AFR][1000 genomes] |
| rs458779 | 1.00[AFR][1000 genomes] |
| rs460670 | 1.00[AFR][1000 genomes] |
| rs460800 | 0.86[AFR][1000 genomes] |
| rs462060 | 1.00[AFR][1000 genomes] |
| rs462178 | 1.00[AFR][1000 genomes] |
| rs463373 | 1.00[AFR][1000 genomes] |
| rs463661 | 1.00[AFR][1000 genomes] |
| rs464114 | 1.00[AFR][1000 genomes] |
| rs464969 | 1.00[AFR][1000 genomes] |
| rs651551 | 1.00[AFR][1000 genomes] |
| rs6832846 | 1.00[AFR][1000 genomes] |
| rs7667281 | 0.82[ASN][1000 genomes] |
| rs978998 | 0.82[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv869164 | chr4:102483189-103213842 | Weak transcription Enhancers Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
| 2 | nsv428447 | chr4:103103730-103262107 | Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs170872 | SLC39A8 | cis | multi-tissue | Pritchard |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr4:103132400-103139200 | Weak transcription | H9 Cell Line | embryonic stem cell |
