Variant report
| Variant | rs10143699 |
|---|---|
| Chromosome Location | chr14:55379476-55379477 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:3)
- LncRNA region (count:1)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:3 , 50 per page) page:
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(count:1 , 50 per page) page:
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| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-SOCS4-5 | chr14:55379237-55379567 | NONHSAT036978 |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000131979 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:14)
| rs_ID | r2[population] |
|---|---|
| rs10131563 | 1.00[AMR][1000 genomes] |
| rs10138594 | 1.00[AMR][1000 genomes] |
| rs10139408 | 0.87[AFR][1000 genomes] |
| rs10140092 | 0.83[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs10141456 | 1.00[AMR][1000 genomes] |
| rs10142436 | 0.83[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs10145816 | 1.00[YRI][hapmap];0.86[AFR][1000 genomes] |
| rs10148995 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs11847085 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs12323345 | 1.00[AMR][1000 genomes] |
| rs28411355 | 0.91[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs28413055 | 1.00[AMR][1000 genomes] |
| rs28458175 | 0.82[AFR][1000 genomes] |
| rs9972204 | 1.00[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
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| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv530042 | chr14:55208170-55386966 | Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 20 gene(s) | inside rSNPs | diseases |
| 2 | nsv932970 | chr14:55326559-55532749 | Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 49 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr14:55370600-55388600 | Weak transcription | HepG2 | liver |
