Variant report
| Variant | rs9961475 |
|---|---|
| Chromosome Location | chr18:25377196-25377197 |
| 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 | chr18:25374132..25375724-chr18:25376125..25378154,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:12)
| rs_ID | r2[population] |
|---|---|
| rs10853677 | 0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs11662671 | 0.90[ASN][1000 genomes] |
| rs11876427 | 0.88[ASN][1000 genomes] |
| rs2002401 | 0.85[ASN][1000 genomes] |
| rs4273126 | 0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs4800820 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs67108301 | 0.90[ASN][1000 genomes] |
| rs8091387 | 0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs8092192 | 0.86[ASN][1000 genomes] |
| rs8096576 | 0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9951086 | 0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9959491 | 0.90[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | esv2761996 | chr18:24866083-25818618 | Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 12 gene(s) | inside rSNPs | diseases |
| 2 | nsv833604 | chr18:25226727-25417423 | Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS | Chromatin interactive region | n/a | inside rSNPs | diseases |
| 3 | nsv1058084 | chr18:25355165-25383779 | Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer | Chromatin interactive region | n/a | inside rSNPs | diseases |
| 4 | nsv1056800 | chr18:25357990-25379390 | Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer | Chromatin interactive region | n/a | inside rSNPs | diseases |
| 5 | nsv1064665 | chr18:25374753-25429234 | Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats | Chromatin interactive region | n/a | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs9961475 | C18orf8 | cis | parietal | SCAN |
| rs9961475 | CDH2 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr18:25376400-25377400 | Enhancers | Dnd41 | blood |
