Variant report
| Variant | rs28706078 |
|---|---|
| Chromosome Location | chr4:171977372-171977373 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:5)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
(count:5 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-GALNTL6-2 | chr4:171977356-171977489 | XLOC_003777 |
| 2 | lnc-GALNTL6-2 | chr4:171976979-171980314 | XLOC_003777 |
| 3 | lnc-GALNTL6-2 | chr4:171977351-171977489 | XLOC_003777 |
| 4 | lnc-GALNTL6-2 | chr4:171977356-171977489 | ENSG00000248872 |
| 5 | lnc-GALNTL6-2 | chr4:171977356-171977489 | NR_038838 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:13)
| rs_ID | r2[population] |
|---|---|
| rs10010024 | 0.82[AFR][1000 genomes] |
| rs10021901 | 0.96[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs12648588 | 0.96[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs12651692 | 0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1911811 | 0.90[AFR][1000 genomes];0.86[AMR][1000 genomes] |
| rs1949006 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs1949007 | 0.82[AFR][1000 genomes] |
| rs2102429 | 0.85[AMR][1000 genomes];0.81[EUR][1000 genomes] |
| rs28537418 | 0.96[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs28611223 | 0.82[AFR][1000 genomes] |
| rs2940431 | 0.85[AMR][1000 genomes];0.81[EUR][1000 genomes] |
| rs35634213 | 1.00[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs4692626 | 0.95[AMR][1000 genomes];0.88[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv881345 | chr4:171673765-172228547 | Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 17 gene(s) | inside rSNPs | diseases |
| 2 | nsv1018793 | chr4:171808272-172395180 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 16 gene(s) | inside rSNPs | diseases |
| 3 | nsv461836 | chr4:171963233-172494233 | ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 13 gene(s) | inside rSNPs | diseases |
| 4 | nsv596169 | chr4:171963233-172494233 | Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 13 gene(s) | inside rSNPs | diseases |
| 5 | esv3445879 | chr4:171974477-171978175 | Inactive region | lncRNA | 5 gene(s) | inside rSNPs | n/a |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
