Variant report
| Variant | rs4678717 |
|---|---|
| Chromosome Location | chr3:34915108-34915109 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:1)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-ARPP21-2 | chr3:34914133-34915346 | NONHSAT088963 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:23)
| rs_ID | r2[population] |
|---|---|
| rs11925888 | 0.83[ASN][1000 genomes] |
| rs12053892 | 0.93[ASN][1000 genomes] |
| rs1357428 | 0.85[AFR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes] |
| rs1474299 | 0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs17032340 | 0.85[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs17032385 | 0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs2071488 | 0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs4549234 | 0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs4575830 | 0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs4678716 | 1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs4678724 | 0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs56235912 | 0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs58778451 | 0.96[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs59750319 | 0.96[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs62260224 | 0.94[ASN][1000 genomes] |
| rs6550306 | 0.96[EUR][1000 genomes];0.88[ASN][1000 genomes] |
| rs6792813 | 0.95[ASN][1000 genomes] |
| rs73061969 | 0.81[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs73063843 | 0.90[ASN][1000 genomes] |
| rs73063864 | 0.81[ASN][1000 genomes] |
| rs7625986 | 0.87[ASN][1000 genomes] |
| rs7653203 | 0.83[ASN][1000 genomes] |
| rs940047 | 0.86[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv834654 | chr3:34747802-34916657 | Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 2 | nsv590052 | chr3:34910172-34937547 | Weak transcription Enhancers | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | n/a |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs4678717 | SLC22A14 | cis | cerebellum | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
