Variant report
| Variant | rs12143746 |
|---|---|
| Chromosome Location | chr1:159458096-159458097 |
| allele | A/C |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:29)
| rs_ID | r2[population] |
|---|---|
| rs11265208 | 0.84[ASN][1000 genomes] |
| rs12124964 | 0.84[ASN][1000 genomes] |
| rs12126265 | 0.84[ASN][1000 genomes] |
| rs12127293 | 0.84[ASN][1000 genomes] |
| rs12131358 | 0.84[ASN][1000 genomes] |
| rs12132709 | 0.84[ASN][1000 genomes] |
| rs12135090 | 0.84[ASN][1000 genomes] |
| rs12409528 | 0.84[ASN][1000 genomes] |
| rs12409540 | 1.00[CHB][hapmap];0.84[ASN][1000 genomes] |
| rs12410757 | 0.84[ASN][1000 genomes] |
| rs12750941 | 0.84[ASN][1000 genomes] |
| rs12756262 | 0.84[ASN][1000 genomes] |
| rs17422585 | 1.00[CHB][hapmap];0.85[GIH][hapmap];0.84[ASN][1000 genomes] |
| rs28420559 | 0.84[ASN][1000 genomes] |
| rs34000798 | 0.84[ASN][1000 genomes] |
| rs4133289 | 0.84[ASN][1000 genomes] |
| rs61821494 | 0.84[ASN][1000 genomes] |
| rs61821495 | 0.84[ASN][1000 genomes] |
| rs61821510 | 0.84[ASN][1000 genomes] |
| rs6683536 | 0.84[ASN][1000 genomes] |
| rs72715662 | 0.84[ASN][1000 genomes] |
| rs7511872 | 1.00[CHB][hapmap];0.84[ASN][1000 genomes] |
| rs7519020 | 0.84[ASN][1000 genomes] |
| rs7522607 | 0.85[GIH][hapmap] |
| rs7540007 | 0.84[ASN][1000 genomes] |
| rs7541480 | 0.84[ASN][1000 genomes] |
| rs7551346 | 0.84[ASN][1000 genomes] |
| rs7556355 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs981677 | 1.00[CHB][hapmap] |
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 | nsv432975 | chr1:159431927-159461927 | Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| 2 | nsv1005195 | chr1:159452759-159910337 | Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 90 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:4)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs12143746 | PEA15 | cis | cerebellum | SCAN |
| rs12143746 | CRABP2 | cis | parietal | SCAN |
| rs12143746 | UFC1 | cis | cerebellum | SCAN |
| rs12143746 | DUSP23 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr1:159445400-159461800 | Weak transcription | Muscle Satellite Cultured Cells | -- |
