Variant report
| Variant | rs1508297 |
|---|---|
| Chromosome Location | chr4:171979241-171979242 |
| allele | C/T |
| 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 | chr4:171979028-171980311 | XLOC_003777 |
| 2 | lnc-GALNTL6-2 | chr4:171976979-171980314 | XLOC_003777 |
| 3 | lnc-GALNTL6-2 | chr4:171979028-171979553 | XLOC_003777 |
| 4 | lnc-GALNTL6-2 | chr4:171979028-171980314 | ENSG00000248872 |
| 5 | lnc-GALNTL6-2 | chr4:171979028-171980311 | NR_038838 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:7)
| rs_ID | r2[population] |
|---|---|
| rs10010024 | 0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs13132033 | 0.81[EUR][1000 genomes] |
| rs1911811 | 0.80[AFR][1000 genomes] |
| rs1949007 | 0.95[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs28611223 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs35409203 | 0.82[EUR][1000 genomes] |
| rs67084214 | 0.81[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 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 |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
