Variant report
| Variant | rs11164309 |
|---|---|
| Chromosome Location | chr1:91907154-91907155 |
| allele | A/G |
| 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:
1
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000097046 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:20)
| rs_ID | r2[population] |
|---|---|
| rs11164235 | 0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes] |
| rs11164236 | 0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[ASN][1000 genomes] |
| rs11164253 | 0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[ASN][1000 genomes] |
| rs11164271 | 0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes] |
| rs11164333 | 0.84[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs11164338 | 0.84[AMR][1000 genomes];0.88[ASN][1000 genomes] |
| rs11164343 | 0.86[AMR][1000 genomes];0.89[ASN][1000 genomes] |
| rs11810012 | 0.82[AMR][1000 genomes] |
| rs11811919 | 0.82[AMR][1000 genomes] |
| rs12135162 | 0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes] |
| rs3851270 | 0.87[AMR][1000 genomes];0.88[ASN][1000 genomes] |
| rs3867307 | 0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes] |
| rs3867309 | 0.89[AMR][1000 genomes];0.91[ASN][1000 genomes] |
| rs6657350 | 0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[ASN][1000 genomes] |
| rs7515660 | 0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes] |
| rs7515931 | 0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes] |
| rs7516032 | 0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes] |
| rs7518697 | 0.83[AMR][1000 genomes];0.83[ASN][1000 genomes] |
| rs7523206 | 0.87[AMR][1000 genomes];0.90[ASN][1000 genomes] |
| rs7524900 | 0.83[AMR][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 | nsv949516 | chr1:91644418-92109261 | Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 28 gene(s) | inside rSNPs | diseases |
| 2 | nsv1009560 | chr1:91897078-92270781 | Enhancers Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 14 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs11164309 | CDC7 | Cis_1M | lymphoblastoid | RTeQTL |
Chromatin state (count:0 , 50 per page) page:
| No data |
