Variant report
| Variant | rs6671112 |
|---|---|
| Chromosome Location | chr1:186232656-186232657 |
| 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:28)
| rs_ID | r2[population] |
|---|---|
| rs10911840 | 0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1285114 | 0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1285115 | 0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1285116 | 0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1285117 | 0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1285119 | 0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1293986 | 0.95[EUR][1000 genomes] |
| rs1475100 | 0.90[AFR][1000 genomes];0.88[EUR][1000 genomes] |
| rs1998347 | 0.94[EUR][1000 genomes] |
| rs4651306 | 0.90[AFR][1000 genomes] |
| rs585738 | 0.83[CHD][hapmap] |
| rs611643 | 0.83[CHD][hapmap] |
| rs622480 | 0.83[CHD][hapmap] |
| rs632800 | 0.83[CHD][hapmap] |
| rs633606 | 0.83[CHD][hapmap] |
| rs639851 | 0.83[CHD][hapmap] |
| rs647696 | 0.86[JPT][hapmap] |
| rs652052 | 0.83[CHD][hapmap] |
| rs653791 | 0.83[CHD][hapmap] |
| rs654335 | 0.83[CHD][hapmap] |
| rs655434 | 0.83[CHD][hapmap] |
| rs664058 | 0.83[CHD][hapmap] |
| rs668866 | 0.83[CHD][hapmap] |
| rs677889 | 0.83[CHD][hapmap] |
| rs704308 | 0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs716288 | 0.90[AFR][1000 genomes] |
| rs857582 | 0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs857584 | 0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][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 | esv3424090 | chr1:185679718-186270877 | Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 12 gene(s) | inside rSNPs | diseases |
| 2 | nsv1004481 | chr1:186095854-186750968 | Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 60 gene(s) | inside rSNPs | diseases |
| 3 | nsv535223 | chr1:186095854-186750968 | Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 60 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs6671112 | RNF2 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr1:186232600-186237400 | Weak transcription | K562 | blood |
