Variant report
| Variant | rs7649959 |
|---|---|
| Chromosome Location | chr3:160921802-160921803 |
| allele | A/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:
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| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000169251 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:16)
| rs_ID | r2[population] |
|---|---|
| rs12488878 | 0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs12494844 | 0.80[ASN][1000 genomes] |
| rs4270539 | 0.80[ASN][1000 genomes] |
| rs4490410 | 0.80[ASN][1000 genomes] |
| rs62278055 | 0.80[ASN][1000 genomes] |
| rs6799805 | 0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs73160351 | 0.87[ASN][1000 genomes] |
| rs7622060 | 0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs9290072 | 0.87[ASN][1000 genomes] |
| rs9825118 | 0.80[ASN][1000 genomes] |
| rs9831725 | 0.82[ASN][1000 genomes] |
| rs9842281 | 0.80[ASN][1000 genomes] |
| rs9852919 | 0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs9857946 | 0.87[ASN][1000 genomes] |
| rs9858399 | 0.80[ASN][1000 genomes] |
| rs9878365 | 0.80[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
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| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv931072 | chr3:160669567-161159779 | Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 98 gene(s) | inside rSNPs | diseases |
| 2 | nsv1015063 | chr3:160918307-161024070 | Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 20 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs7649959 | B3GALNT1 | Cis_1M | lymphoblastoid | RTeQTL |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:160915000-160927000 | Weak transcription | Aorta | Aorta |
