Variant report
| Variant | rs12483041 |
|---|---|
| Chromosome Location | chr21:15790187-15790188 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:1)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr21:15787706..15790405-chr21:16436901..16438934,2 | MCF-7 | breast: |
(count:1 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-HSPA13-1 | chr21:15789906-15790314 | NONHSAT081162 |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000180530 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:15)
| rs_ID | r2[population] |
|---|---|
| rs11088043 | 1.00[ASN][1000 genomes] |
| rs12626304 | 1.00[AFR][1000 genomes];1.00[ASN][1000 genomes] |
| rs17208186 | 0.87[GIH][hapmap];1.00[LWK][hapmap];0.87[MKK][hapmap] |
| rs17274156 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs2142235 | 1.00[ASN][1000 genomes] |
| rs2178900 | 1.00[AFR][1000 genomes] |
| rs2822761 | 1.00[LWK][hapmap] |
| rs2822776 | 1.00[LWK][hapmap] |
| rs62229703 | 1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs62229728 | 1.00[AFR][1000 genomes];1.00[ASN][1000 genomes] |
| rs62229729 | 1.00[AFR][1000 genomes];1.00[ASN][1000 genomes] |
| rs760348 | 1.00[LWK][hapmap] |
| rs8134274 | 1.00[ASN][1000 genomes] |
| rs9975245 | 1.00[ASN][1000 genomes] |
| rs9975290 | 1.00[ASN][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 | nsv1064554 | chr21:15676222-15809321 | Strong transcription Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 8 gene(s) | inside rSNPs | diseases |
| 2 | nsv1063703 | chr21:15777995-15882121 | Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 3 | nsv544375 | chr21:15777995-15882121 | Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr21:15789800-15792200 | Weak transcription | iPS DF 19.11 Cell Line | embryonic stem cell |
