Variant report
| Variant | rs1380255 |
|---|---|
| Chromosome Location | chr1:221656366-221656367 |
| allele | A/G |
| 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:24)
| rs_ID | r2[population] |
|---|---|
| rs10863614 | 0.89[ASN][1000 genomes] |
| rs10863619 | 0.84[CEU][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes] |
| rs10863620 | 0.82[ASN][1000 genomes] |
| rs10863621 | 0.82[ASN][1000 genomes] |
| rs11118729 | 0.82[ASN][1000 genomes] |
| rs11118730 | 0.82[ASN][1000 genomes] |
| rs11118731 | 0.81[AMR][1000 genomes];0.85[EUR][1000 genomes] |
| rs11118733 | 0.85[EUR][1000 genomes] |
| rs11118734 | 0.85[EUR][1000 genomes] |
| rs1459231 | 0.82[EUR][1000 genomes] |
| rs1599087 | 0.90[JPT][hapmap] |
| rs1824360 | 0.81[ASN][1000 genomes] |
| rs4308983 | 0.81[ASN][1000 genomes] |
| rs61817017 | 0.81[ASN][1000 genomes] |
| rs6690772 | 0.81[AMR][1000 genomes];0.85[EUR][1000 genomes] |
| rs6694450 | 0.91[AMR][1000 genomes];0.87[EUR][1000 genomes] |
| rs6696579 | 0.82[ASN][1000 genomes] |
| rs6696765 | 0.82[ASN][1000 genomes] |
| rs7547282 | 0.85[EUR][1000 genomes] |
| rs875563 | 0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs9308395 | 0.88[ASN][1000 genomes] |
| rs969024 | 0.89[ASN][1000 genomes] |
| rs9725646 | 0.90[JPT][hapmap] |
| rs997927 | 0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[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 | nsv997685 | chr1:220993527-221863416 | Enhancers Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 28 gene(s) | inside rSNPs | diseases |
| 2 | nsv535299 | chr1:220993527-221863416 | Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 28 gene(s) | inside rSNPs | diseases |
| 3 | nsv873200 | chr1:221644180-221843191 | Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs1380255 | DUSP10 | cis | cerebellum | SCAN |
| rs1380255 | TGFB2 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr1:221652200-221669000 | Weak transcription | Foreskin Fibroblast Primary Cells skin02 | Skin |
