Variant report
| Variant | rs1401345 |
|---|---|
| Chromosome Location | chr3:34277749-34277750 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr3:34276733..34278426-chr3:34286932..34289441,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:27)
| rs_ID | r2[population] |
|---|---|
| rs13063802 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs13079512 | 0.90[ASN][1000 genomes] |
| rs13097138 | 0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs1401341 | 0.93[ASN][1000 genomes] |
| rs1401344 | 0.99[ASN][1000 genomes] |
| rs1518878 | 0.97[ASN][1000 genomes] |
| rs1518879 | 0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs1518888 | 0.93[ASN][1000 genomes] |
| rs1518891 | 0.97[ASN][1000 genomes] |
| rs1878862 | 0.99[ASN][1000 genomes] |
| rs2139171 | 0.96[ASN][1000 genomes] |
| rs34891554 | 0.99[ASN][1000 genomes] |
| rs4267602 | 0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs4514999 | 0.99[ASN][1000 genomes] |
| rs4538327 | 0.99[ASN][1000 genomes] |
| rs4678461 | 0.98[ASN][1000 genomes] |
| rs4678462 | 0.98[ASN][1000 genomes] |
| rs6793674 | 0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs7631143 | 0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs7642509 | 0.95[ASN][1000 genomes] |
| rs883057 | 0.94[ASN][1000 genomes] |
| rs939021 | 0.93[ASN][1000 genomes] |
| rs939022 | 0.93[ASN][1000 genomes] |
| rs939023 | 0.93[ASN][1000 genomes] |
| rs9827191 | 0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs9827539 | 0.98[ASN][1000 genomes] |
| rs9827879 | 0.98[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 | nsv1001599 | chr3:34149575-34437701 | Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 2 | nsv536533 | chr3:34149575-34437701 | Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 3 | nsv876682 | chr3:34149814-34401451 | Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 4 | nsv916961 | chr3:34203879-34506554 | Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs1401345 | CMTM8 | cis | parietal | SCAN |
| rs1401345 | DLEC1 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:34276400-34281600 | Weak transcription | H9 Derived Neuron Cultured Cells | ES cell derived |
