Variant report
| Variant | rs11180162 |
|---|---|
| Chromosome Location | chr12:75081042-75081043 |
| 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 | chr12:74931373..74934203-chr12:75080522..75082837,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000253719 | Chromatin interaction |
| ENSG00000257386 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:13)
| rs_ID | r2[population] |
|---|---|
| rs10506689 | 1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs10785138 | 0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap] |
| rs10879820 | 0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10879821 | 0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1112143 | 0.85[ASN][1000 genomes] |
| rs11180138 | 0.85[ASN][1000 genomes] |
| rs11180159 | 1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs11180164 | 0.80[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs11180166 | 0.82[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs12231259 | 0.81[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs1948988 | 1.00[CEU][hapmap];0.93[CHB][hapmap];0.86[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs2063182 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7980012 | 0.82[CHB][hapmap] |
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 | nsv899297 | chr12:75045728-75169675 | Enhancers Weak transcription Flanking Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 2 | nsv899298 | chr12:75045728-75173289 | Enhancers Weak transcription Flanking Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 3 | nsv427915 | chr12:75047293-75172692 | Enhancers Weak transcription Flanking Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs11180162 | NAP1L1 | cis | parietal | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
