Variant report
| Variant | rs6578740 |
|---|---|
| Chromosome Location | chr11:6127197-6127198 |
| allele | A/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:26)
| rs_ID | r2[population] |
|---|---|
| rs1381911 | 0.83[ASN][1000 genomes] |
| rs1599692 | 0.81[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1903778 | 0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1903779 | 0.84[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs325634 | 0.87[ASN][1000 genomes] |
| rs325639 | 0.94[ASN][1000 genomes] |
| rs325657 | 0.83[ASN][1000 genomes] |
| rs325661 | 0.86[ASN][1000 genomes] |
| rs325666 | 0.92[ASN][1000 genomes] |
| rs34220108 | 0.86[ASN][1000 genomes] |
| rs3921908 | 1.00[ASN][1000 genomes] |
| rs4520575 | 0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs4758078 | 0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs4758085 | 1.00[ASN][1000 genomes] |
| rs4758086 | 0.89[ASN][1000 genomes] |
| rs4758380 | 0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs4758392 | 0.94[ASN][1000 genomes] |
| rs6578742 | 0.83[ASN][1000 genomes] |
| rs6578743 | 0.92[ASN][1000 genomes] |
| rs6578744 | 1.00[ASN][1000 genomes] |
| rs7110410 | 0.83[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs7117911 | 0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7480133 | 0.94[ASN][1000 genomes] |
| rs7930953 | 0.89[ASN][1000 genomes] |
| rs7944650 | 0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7948429 | 0.89[ASN][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 | nsv553241 | chr11:5506034-6203685 | Genic enhancers Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 74 gene(s) | inside rSNPs | diseases |
| 2 | nsv530216 | chr11:5614439-6468232 | Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 90 gene(s) | inside rSNPs | diseases |
| 3 | nsv1036389 | chr11:5695451-6177680 | Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 55 gene(s) | inside rSNPs | diseases |
| 4 | nsv540943 | chr11:5695451-6177680 | Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 55 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs6578740 | OR10A5,OR10A2 | cis | occipital cortex | BrainEAC |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr11:6123800-6129800 | Weak transcription | Pancreas | Pancrea |
