Variant report
| Variant | rs17131659 |
|---|---|
| Chromosome Location | chr1:84858972-84858973 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr1:84857639..84859473-chr1:84863032..84864817,2 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000137976 | Chromatin interaction |
| ENSG00000240520 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:25)
| rs_ID | r2[population] |
|---|---|
| rs12029581 | 0.90[JPT][hapmap] |
| rs12034438 | 0.85[JPT][hapmap] |
| rs12046192 | 0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs1246386 | 0.91[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes] |
| rs1246392 | 0.90[JPT][hapmap] |
| rs12568281 | 0.95[AFR][1000 genomes] |
| rs1506700 | 0.90[JPT][hapmap] |
| rs1981254 | 0.90[JPT][hapmap] |
| rs2275571 | 0.92[AFR][1000 genomes] |
| rs3116415 | 0.90[JPT][hapmap] |
| rs3117747 | 0.89[CHB][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes] |
| rs3121147 | 0.90[JPT][hapmap] |
| rs3813608 | 0.95[CHB][hapmap];0.90[JPT][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs3956461 | 0.91[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes] |
| rs472601 | 0.90[JPT][hapmap] |
| rs507772 | 0.90[JPT][hapmap] |
| rs548310 | 0.82[ASW][hapmap] |
| rs553775 | 0.86[JPT][hapmap] |
| rs576888 | 0.84[ASW][hapmap] |
| rs601564 | 0.90[JPT][hapmap] |
| rs6576700 | 0.90[JPT][hapmap] |
| rs6663802 | 0.90[JPT][hapmap] |
| rs679725 | 0.90[JPT][hapmap] |
| rs72714743 | 0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs7554646 | 0.94[ASW][hapmap];0.95[LWK][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv830437 | chr1:84837524-85001269 | Flanking Active TSS Active TSS Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 40 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs17131659 | LPAR3 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr1:84858000-84863200 | Weak transcription | Cortex derived primary cultured neurospheres | brain |
| 2 | chr1:84858800-84859200 | Enhancers | HUVEC | blood vessel |
