Variant report
| Variant | rs62367393 |
|---|---|
| Chromosome Location | chr5:50270360-50270361 |
| allele | A/C |
| 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 | chr5:50265958..50268570-chr5:50270172..50272797,2 | K562 | blood: |
(count:1 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-PARP8-2 | chr5:50265757-50272447 | NONHSAT101376 |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000251573 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:18)
| rs_ID | r2[population] |
|---|---|
| rs10035173 | 0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10054150 | 0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs11746939 | 0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs13163606 | 0.98[ASN][1000 genomes] |
| rs1345777 | 0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs151986 | 0.86[AFR][1000 genomes];0.81[AMR][1000 genomes] |
| rs151997 | 0.86[AFR][1000 genomes];0.81[AMR][1000 genomes] |
| rs27247 | 0.86[AFR][1000 genomes];0.81[AMR][1000 genomes] |
| rs27249 | 0.86[AFR][1000 genomes];0.81[AMR][1000 genomes] |
| rs35056981 | 0.84[EUR][1000 genomes] |
| rs3846498 | 0.92[AFR][1000 genomes];0.85[AMR][1000 genomes] |
| rs3846499 | 0.92[AFR][1000 genomes];0.86[AMR][1000 genomes] |
| rs3846500 | 0.92[AFR][1000 genomes];0.86[AMR][1000 genomes] |
| rs62367392 | 0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs635788 | 0.83[AFR][1000 genomes] |
| rs6870880 | 0.92[AFR][1000 genomes];0.86[AMR][1000 genomes] |
| rs6882235 | 0.92[AFR][1000 genomes];0.90[AMR][1000 genomes] |
| rs9292165 | 0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];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 | nsv1034445 | chr5:49986171-50492609 | Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 16 gene(s) | inside rSNPs | diseases |
| 2 | nsv598116 | chr5:50064292-50318550 | Active TSS Bivalent/Poised TSS Strong transcription Weak transcription Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 11 gene(s) | inside rSNPs | diseases |
| 3 | nsv830286 | chr5:50165805-50374600 | Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr5:50270000-50270800 | Weak transcription | Stomach Smooth Muscle | stomach |
