Variant report
| Variant | rs13423258 |
|---|---|
| Chromosome Location | chr2:189092763-189092764 |
| allele | G/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:2)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
(count:2 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-DIRC1-2 | chr2:189092547-189093259 | ENSG00000231689 |
| 2 | lnc-DIRC1-2 | chr2:189091078-189093262 | NONHSAT076027 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:27)
| rs_ID | r2[population] |
|---|---|
| rs10153862 | 0.80[AFR][1000 genomes] |
| rs10168466 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs10174521 | 0.80[AFR][1000 genomes] |
| rs10186464 | 1.00[AMR][1000 genomes] |
| rs10196886 | 0.89[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs10198161 | 0.80[AFR][1000 genomes] |
| rs10206202 | 0.81[YRI][hapmap] |
| rs10211425 | 0.81[YRI][hapmap] |
| rs10211482 | 0.80[AFR][1000 genomes] |
| rs13389097 | 1.00[AMR][1000 genomes] |
| rs13390367 | 0.80[AFR][1000 genomes] |
| rs13391898 | 1.00[AMR][1000 genomes] |
| rs13393442 | 0.90[YRI][hapmap] |
| rs13395248 | 1.00[AMR][1000 genomes] |
| rs13399903 | 0.81[YRI][hapmap] |
| rs13400817 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs13407674 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs13414813 | 1.00[MEX][hapmap];0.88[MKK][hapmap];0.81[YRI][hapmap] |
| rs13424983 | 1.00[AMR][1000 genomes] |
| rs59158272 | 1.00[AMR][1000 genomes] |
| rs6710795 | 0.80[AFR][1000 genomes] |
| rs6726657 | 0.90[YRI][hapmap] |
| rs6743691 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs6747109 | 1.00[AMR][1000 genomes] |
| rs6755644 | 0.81[YRI][hapmap] |
| rs7579505 | 0.81[YRI][hapmap] |
| rs7589600 | 1.00[MEX][hapmap];0.88[MKK][hapmap];0.81[YRI][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 | nsv1010394 | chr2:188994398-189284092 | Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 10 gene(s) | inside rSNPs | diseases |
| 2 | nsv998395 | chr2:189018246-189284092 | Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 8 gene(s) | inside rSNPs | diseases |
| 3 | nsv431879 | chr2:189079494-189118494 | Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr2:189090400-189096200 | Weak transcription | H1 BMP4 Derived Trophoblast Cultured Cells | ES cell derived |
