Variant report
| Variant | rs6769927 |
|---|---|
| Chromosome Location | chr3:160763566-160763567 |
| allele | C/G |
| 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:31)
| rs_ID | r2[population] |
|---|---|
| rs10513560 | 0.85[AMR][1000 genomes] |
| rs10936216 | 0.85[AMR][1000 genomes] |
| rs1374787 | 0.86[EUR][1000 genomes] |
| rs1447609 | 0.82[AMR][1000 genomes] |
| rs1530636 | 0.85[AMR][1000 genomes] |
| rs1562465 | 0.85[AMR][1000 genomes] |
| rs1580253 | 0.91[AMR][1000 genomes];0.85[EUR][1000 genomes] |
| rs1580254 | 0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs1868109 | 0.82[EUR][1000 genomes] |
| rs2376476 | 0.86[EUR][1000 genomes] |
| rs2376477 | 0.87[EUR][1000 genomes] |
| rs2889391 | 0.85[AMR][1000 genomes] |
| rs34462546 | 0.80[AMR][1000 genomes] |
| rs34884182 | 0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs35187206 | 0.91[AMR][1000 genomes];0.85[EUR][1000 genomes] |
| rs4679928 | 0.87[EUR][1000 genomes] |
| rs6441345 | 0.85[AMR][1000 genomes] |
| rs6441346 | 0.85[AMR][1000 genomes] |
| rs6763532 | 0.85[AMR][1000 genomes] |
| rs6770180 | 0.85[AMR][1000 genomes] |
| rs6774203 | 0.82[AMR][1000 genomes] |
| rs6791375 | 0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs6808311 | 0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes] |
| rs7611005 | 0.85[EUR][1000 genomes] |
| rs898682 | 0.86[AMR][1000 genomes] |
| rs9839984 | 0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs9840600 | 0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes] |
| rs9846254 | 0.91[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs9858335 | 0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs9860182 | 0.92[AMR][1000 genomes];0.85[EUR][1000 genomes] |
| rs9873705 | 0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes] |
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 | 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 |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs6769927 | B3GALNT1 | Cis_1M | lymphoblastoid | RTeQTL |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:160745200-160782600 | Weak transcription | Skeletal Muscle Female | skeletal muscle |
| 2 | chr3:160760800-160767600 | Weak transcription | H1 BMP4 Derived Trophoblast Cultured Cells | ES cell derived |
