Variant report
| Variant | rs35078352 |
|---|---|
| Chromosome Location | chr15:75375950-75375951 |
| allele | C/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 | chr15:75375275..75377276-chr15:75389324..75392247,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:23)
| rs_ID | r2[population] |
|---|---|
| rs11854975 | 0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs12101482 | 0.84[EUR][1000 genomes] |
| rs12148488 | 0.86[EUR][1000 genomes] |
| rs12898551 | 0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs12899062 | 0.84[EUR][1000 genomes] |
| rs12900072 | 0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs12904227 | 0.86[EUR][1000 genomes] |
| rs1867148 | 0.84[EUR][1000 genomes] |
| rs1867149 | 0.84[EUR][1000 genomes] |
| rs2304902 | 0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs4886417 | 0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs4886648 | 0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs4886655 | 0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs6495144 | 0.84[EUR][1000 genomes] |
| rs6495150 | 0.85[EUR][1000 genomes] |
| rs6495151 | 0.84[EUR][1000 genomes] |
| rs67168917 | 0.85[EUR][1000 genomes] |
| rs7163362 | 0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7163636 | 0.84[EUR][1000 genomes] |
| rs7167261 | 0.84[EUR][1000 genomes] |
| rs7181261 | 0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs8028129 | 0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs8039755 | 0.84[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv569993 | chr15:75242155-75483752 | Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 72 gene(s) | inside rSNPs | diseases |
| 2 | nsv457205 | chr15:75336729-75447773 | Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 11 gene(s) | inside rSNPs | diseases |
| 3 | nsv569994 | chr15:75336729-75447773 | Genic enhancers Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 11 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs35078352 | COX5A | Cis_1M | lymphoblastoid | RTeQTL |
| rs35078352 | SCAMP5 | cis | Artery Tibial | GTEx |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr15:75375800-75376000 | Enhancers | Primary monocytes fromperipheralblood | blood |
