Variant report
| Variant | rs12350842 |
|---|---|
| Chromosome Location | chr9:95347527-95347528 |
| allele | G/T |
| 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 | chr9:95328212..95329725-chr9:95347418..95349091,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:24)
| rs_ID | r2[population] |
|---|---|
| rs10115976 | 1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs10117603 | 0.86[EUR][1000 genomes] |
| rs10820973 | 1.00[CEU][hapmap];0.81[EUR][1000 genomes] |
| rs10820978 | 1.00[CEU][hapmap];0.82[EUR][1000 genomes] |
| rs10820982 | 0.87[EUR][1000 genomes] |
| rs10820995 | 1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs10992348 | 1.00[CEU][hapmap];0.82[EUR][1000 genomes] |
| rs10992350 | 1.00[CEU][hapmap];0.82[EUR][1000 genomes] |
| rs10992359 | 0.83[AMR][1000 genomes];0.87[EUR][1000 genomes] |
| rs10992393 | 0.82[AFR][1000 genomes] |
| rs12347857 | 1.00[CEU][hapmap];0.86[EUR][1000 genomes] |
| rs12350198 | 0.87[EUR][1000 genomes] |
| rs12378023 | 0.87[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs1951849 | 0.81[EUR][1000 genomes] |
| rs4744140 | 0.81[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs56168105 | 0.85[EUR][1000 genomes] |
| rs6479425 | 0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs7027998 | 0.87[EUR][1000 genomes] |
| rs7036459 | 1.00[CEU][hapmap];0.91[EUR][1000 genomes] |
| rs7037068 | 0.83[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs7862677 | 0.87[EUR][1000 genomes] |
| rs7872739 | 1.00[CEU][hapmap];0.81[EUR][1000 genomes] |
| rs7875681 | 1.00[CEU][hapmap];0.86[EUR][1000 genomes] |
| rs9695754 | 0.95[CEU][hapmap] |
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 | nsv893573 | chr9:94974188-95355719 | Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 33 gene(s) | inside rSNPs | diseases |
| 2 | nsv1052846 | chr9:95291909-95366109 | Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription | TF binding regionCpG islandChromatin interactive region | 6 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:7)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs12350842 | CENPP | cis | Adipose Subcutaneous | GTEx |
| rs12350842 | CENPP | cis | Muscle Skeletal | GTEx |
| rs12350842 | CENPP | cis | Artery Aorta | GTEx |
| rs12350842 | CENPP | cis | Esophagus Muscularis | GTEx |
| rs12350842 | CENPP | cis | Thyroid | GTEx |
| rs12350842 | CENPP | cis | Artery Tibial | GTEx |
| rs12350842 | CENPP | cis | Nerve Tibial | GTEx |
Chromatin state (count:0 , 50 per page) page:
| No data |
