Variant report
| Variant | rs9567939 |
|---|---|
| Chromosome Location | chr13:48448295-48448296 |
| allele | A/T |
| 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:32)
| rs_ID | r2[population] |
|---|---|
| rs10870820 | 0.82[EUR][1000 genomes] |
| rs1160069 | 0.85[ASN][1000 genomes] |
| rs4331249 | 0.85[EUR][1000 genomes] |
| rs4941615 | 0.90[ASN][1000 genomes] |
| rs4942711 | 0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs61562431 | 0.88[ASN][1000 genomes] |
| rs6561408 | 0.85[ASN][1000 genomes] |
| rs7318770 | 0.80[CHB][hapmap] |
| rs7331746 | 0.88[CEU][hapmap];0.85[EUR][1000 genomes] |
| rs7335869 | 0.85[EUR][1000 genomes] |
| rs7339238 | 0.88[CEU][hapmap];0.81[TSI][hapmap];0.86[EUR][1000 genomes] |
| rs7981902 | 0.88[CEU][hapmap];0.81[TSI][hapmap];0.86[EUR][1000 genomes] |
| rs7984527 | 0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs7989231 | 0.80[CHB][hapmap] |
| rs7989765 | 0.91[EUR][1000 genomes] |
| rs7993196 | 0.86[EUR][1000 genomes] |
| rs7997802 | 0.80[CHB][hapmap] |
| rs9534872 | 0.85[EUR][1000 genomes] |
| rs9562772 | 0.92[EUR][1000 genomes] |
| rs9562773 | 0.89[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs9562780 | 0.85[EUR][1000 genomes] |
| rs9562781 | 0.85[EUR][1000 genomes] |
| rs9567942 | 0.89[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs9567944 | 0.86[EUR][1000 genomes] |
| rs9567945 | 0.85[EUR][1000 genomes] |
| rs9567946 | 0.85[EUR][1000 genomes] |
| rs9567958 | 0.80[CHB][hapmap] |
| rs9567975 | 0.83[CEU][hapmap] |
| rs9595815 | 0.80[CHB][hapmap] |
| rs9634811 | 0.86[EUR][1000 genomes] |
| rs970650 | 0.89[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs970651 | 0.89[AMR][1000 genomes];0.82[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 | esv3510679 | chr13:48236624-48498185 | Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 2 | esv3510680 | chr13:48236624-48498185 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 3 | nsv933980 | chr13:48431000-48557419 | Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 4 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs9567939 | SUCLA2 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr13:48447200-48448800 | ZNF genes & repeats | ES-UCSF4 Cell Line | embryonic stem cell |
| 2 | chr13:48448000-48449000 | ZNF genes & repeats | Mesenchymal Stem Cell Derived Adipocyte Cultured Cells | ES cell derived |
