Variant report
| Variant | rs12982449 |
|---|---|
| Chromosome Location | chr19:45024581-45024582 |
| allele | C/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:9)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
(count:9 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-ZNF180-1 | chr19:45024508-45024786 | ENSG00000176395 |
| 2 | lnc-ZNF180-1 | chr19:45024508-45024786 | ENSG00000176395 |
| 3 | lnc-ZNF180-1 | chr19:45024508-45024786 | ENSG00000176395 |
| 4 | lnc-ZNF180-1 | chr19:45024508-45024786 | ENSG00000176395 |
| 5 | lnc-ZNF180-1 | chr19:45024508-45024786 | ENSG00000176395 |
| 6 | lnc-ZNF180-1 | chr19:45024508-45024786 | ENSG00000176395 |
| 7 | lnc-ZNF180-1 | chr19:45024508-45024786 | ENSG00000176395 |
| 8 | lnc-ZNF180-1 | chr19:45024508-45024786 | ENSG00000176395 |
| 9 | lnc-ZNF180-1 | chr19:45024508-45024786 | ENSG00000176395 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:5)
| rs_ID | r2[population] |
|---|---|
| rs11670955 | 0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap] |
| rs12979443 | 0.92[AMR][1000 genomes];0.96[EUR][1000 genomes] |
| rs2103262 | 1.00[CEU][hapmap] |
| rs7260180 | 1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];0.98[GIH][hapmap];0.81[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs939902 | 0.96[CEU][hapmap];0.83[EUR][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 | nsv1061350 | chr19:44869075-45035469 | Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 18 gene(s) | inside rSNPs | diseases |
| 2 | esv3358964 | chr19:45023012-45027410 | Bivalent/Poised TSS | Chromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 3 | esv3359491 | chr19:45023612-45027010 | Bivalent/Poised TSS | Chromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs12982449 | SHPRH | trans | brain | seeQTL |
Chromatin state (count:0 , 50 per page) page:
| No data |
