Variant report
| Variant | rs55701340 |
|---|---|
| Chromosome Location | chr9:93463057-93463058 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:2)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:2 , 50 per page) page:
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| No data |
| No data |
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rSNPs within LD-proxies of this variant (count:24)
| rs_ID | r2[population] |
|---|---|
| rs10512201 | 0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10993628 | 0.95[ASN][1000 genomes] |
| rs10993629 | 0.95[ASN][1000 genomes] |
| rs10993637 | 0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10993648 | 0.86[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10993649 | 0.87[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10993650 | 0.87[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10993651 | 0.87[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10993653 | 0.85[EUR][1000 genomes] |
| rs10993654 | 0.82[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs10993655 | 0.85[EUR][1000 genomes] |
| rs12551476 | 0.85[EUR][1000 genomes] |
| rs13283061 | 0.82[EUR][1000 genomes] |
| rs1469459 | 0.85[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs34518167 | 0.82[EUR][1000 genomes] |
| rs34660475 | 0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs35649391 | 0.82[EUR][1000 genomes] |
| rs55745046 | 0.86[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs55751003 | 0.87[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs55860818 | 0.87[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs55956756 | 0.87[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs56374184 | 0.87[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs62560061 | 0.86[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7470845 | 0.85[EUR][1000 genomes] |
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 | nsv1041278 | chr9:92965701-93560454 | Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 16 gene(s) | inside rSNPs | diseases |
| 2 | nsv1046989 | chr9:93353987-93800416 | Transcr. at gene 5' and 3' Weak transcription Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 18 gene(s) | inside rSNPs | diseases |
| 3 | nsv482757 | chr9:93356095-93543903 | Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 4 | nsv6610 | chr9:93428408-93473346 | Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Active TSS | Chromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs55701340 | SYK | cis | Thyroid | GTEx |
| rs55701340 | SYK | Cis_1M | lymphoblastoid | RTeQTL |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr9:93459600-93465200 | Enhancers | Primary neutrophils fromperipheralblood | blood |
| 2 | chr9:93461800-93464200 | Weak transcription | Monocytes-CD14+_RO01746 | blood |
| 3 | chr9:93462400-93464000 | Weak transcription | Primary monocytes fromperipheralblood | blood |
