Variant report
| Variant | rs11072447 |
|---|---|
| Chromosome Location | chr15:74166455-74166456 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:169)
- CpG islands (count:0)
- Chromatin interactive region (count:5)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
(count:5 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr15:74166388..74169368-chr15:74179169..74181612,2 | MCF-7 | breast: | |
| 2 | chr15:74004204..74004922-chr15:74166147..74166927,2 | MCF-7 | breast: | |
| 3 | chr15:74163735..74170089-chr15:74218002..74222715,6 | MCF-7 | breast: | |
| 4 | chr15:74166119..74166863-chr15:74256630..74257329,4 | MCF-7 | breast: | |
| 5 | chr15:74166361..74166924-chr15:74197514..74198084,2 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000260624 | TF binding region |
| ENSG00000261801 | Chromatin interaction |
| ENSG00000129038 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:32)
| rs_ID | r2[population] |
|---|---|
| rs1031407 | 0.93[ASN][1000 genomes] |
| rs11632129 | 0.89[ASN][1000 genomes] |
| rs11636136 | 0.86[JPT][hapmap];1.00[YRI][hapmap] |
| rs11639300 | 0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs12909231 | 0.89[ASN][1000 genomes] |
| rs12915472 | 0.93[ASN][1000 genomes] |
| rs1377060 | 0.80[ASN][1000 genomes] |
| rs1478558 | 0.80[ASN][1000 genomes] |
| rs1823718 | 0.89[ASN][1000 genomes] |
| rs1901571 | 0.89[ASN][1000 genomes] |
| rs2045931 | 0.86[JPT][hapmap] |
| rs2198295 | 0.80[ASN][1000 genomes] |
| rs2415231 | 0.80[ASN][1000 genomes] |
| rs28361353 | 0.84[AMR][1000 genomes] |
| rs35814490 | 0.80[ASN][1000 genomes] |
| rs4272992 | 1.00[CHD][hapmap];0.83[MEX][hapmap] |
| rs4445847 | 0.80[MEX][hapmap] |
| rs4886418 | 0.80[ASN][1000 genomes] |
| rs4886419 | 0.80[ASN][1000 genomes] |
| rs4886694 | 0.89[ASN][1000 genomes] |
| rs4886698 | 0.89[ASN][1000 genomes] |
| rs4886717 | 1.00[CHD][hapmap] |
| rs4886743 | 1.00[CEU][hapmap] |
| rs4886744 | 0.90[CEU][hapmap];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes] |
| rs62007098 | 0.92[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs62007099 | 0.92[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs6495081 | 0.80[ASN][1000 genomes] |
| rs71399764 | 0.86[ASN][1000 genomes] |
| rs7163502 | 1.00[CHD][hapmap] |
| rs7181093 | 0.80[ASN][1000 genomes] |
| rs8023709 | 0.80[ASN][1000 genomes] |
| rs896600 | 0.96[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1043335 | chr15:74078689-74241186 | Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 17 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:4)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs11072447 | MPI | cis | cerebellum | SCAN |
| rs11072447 | SENP8 | cis | cerebellum | SCAN |
| rs11072447 | PAQR5 | cis | cerebellum | SCAN |
| rs11072447 | SCAMP2 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr15:74154800-74167000 | Weak transcription | H1 Derived Neuronal Progenitor Cultured Cells | ES cell derived |
| 2 | chr15:74164600-74167800 | Weak transcription | Fetal Intestine Large | intestine |
