Variant report
| Variant | rs10889897 |
|---|---|
| Chromosome Location | chr1:71368364-71368365 |
| 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:23)
| rs_ID | r2[population] |
|---|---|
| rs10443262 | 0.85[CHB][hapmap];0.84[JPT][hapmap];0.90[ASN][1000 genomes] |
| rs11209709 | 1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs11209710 | 0.81[CEU][hapmap];0.82[EUR][1000 genomes] |
| rs11209711 | 1.00[CEU][hapmap];0.84[JPT][hapmap];0.94[YRI][hapmap] |
| rs12032742 | 0.91[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs12039590 | 1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs12046641 | 1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs1325950 | 0.90[ASN][1000 genomes] |
| rs1327460 | 0.80[JPT][hapmap] |
| rs1409161 | 1.00[CEU][hapmap] |
| rs1409166 | 0.81[EUR][1000 genomes] |
| rs1409981 | 0.84[CEU][hapmap] |
| rs1409985 | 0.80[JPT][hapmap];0.82[ASN][1000 genomes] |
| rs1409989 | 0.93[AMR][1000 genomes];0.98[EUR][1000 genomes] |
| rs1536537 | 0.84[ASN][1000 genomes] |
| rs1576056 | 0.90[ASN][1000 genomes] |
| rs17541597 | 1.00[CEU][hapmap] |
| rs2225025 | 0.84[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes] |
| rs4650094 | 0.96[CEU][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs7530345 | 0.83[ASN][1000 genomes] |
| rs7533733 | 0.82[ASN][1000 genomes] |
| rs7540868 | 0.83[ASN][1000 genomes] |
| rs942977 | 1.00[CEU][hapmap] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | esv1845198 | chr1:71274759-71514969 | Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
| 2 | nsv830148 | chr1:71310366-71483932 | Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Strong transcription Genic enhancers ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 3 | nsv461840 | chr1:71364105-71468493 | Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 4 | nsv546471 | chr1:71364105-71468493 | Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs10889897 | DKFZp564N2472 | trans | lymphoblastoid | RTeQTL |
Chromatin state (count:0 , 50 per page) page:
| No data |
