Variant report
Variant | rs9342045 |
---|---|
Chromosome Location | chr6:86425148-86425149 |
allele | C/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 |
rs_ID | r2[population] |
---|---|
rs1059306 | 0.84[CEU][hapmap] |
rs1059307 | 0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs1173416 | 0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes] |
rs1173417 | 0.83[CEU][hapmap];0.83[CHB][hapmap] |
rs1173418 | 0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes] |
rs11752795 | 0.85[EUR][1000 genomes] |
rs12193777 | 0.87[EUR][1000 genomes] |
rs12199873 | 0.84[CEU][hapmap] |
rs12203963 | 0.85[EUR][1000 genomes] |
rs12206573 | 0.86[EUR][1000 genomes] |
rs12212560 | 0.96[CEU][hapmap] |
rs2475790 | 0.84[CEU][hapmap] |
rs2475792 | 0.86[CEU][hapmap];0.83[CHB][hapmap] |
rs2758840 | 0.83[CEU][hapmap] |
rs2758842 | 0.91[CEU][hapmap] |
rs2758843 | 0.92[CEU][hapmap] |
rs2758845 | 0.91[CEU][hapmap] |
rs2758847 | 0.83[CEU][hapmap] |
rs2758848 | 1.00[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap];0.92[EUR][1000 genomes] |
rs2758849 | 0.91[EUR][1000 genomes] |
rs2783171 | 0.83[CEU][hapmap] |
rs2842600 | 1.00[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap];0.88[EUR][1000 genomes] |
rs2842601 | 0.83[CEU][hapmap] |
rs2842603 | 0.88[CEU][hapmap] |
rs2842605 | 0.92[EUR][1000 genomes] |
rs2842607 | 0.83[CEU][hapmap] |
rs2842608 | 0.83[CEU][hapmap] |
rs2842609 | 0.84[CEU][hapmap] |
rs2842610 | 0.87[EUR][1000 genomes] |
rs2842611 | 1.00[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap];0.88[EUR][1000 genomes] |
rs2842612 | 0.82[CEU][hapmap] |
rs2842613 | 0.83[CEU][hapmap] |
rs2842614 | 0.91[CEU][hapmap] |
rs2842615 | 0.92[EUR][1000 genomes] |
rs3087978 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes] |
rs34980280 | 0.90[EUR][1000 genomes] |
rs4348284 | 1.00[CEU][hapmap];0.86[JPT][hapmap];0.92[EUR][1000 genomes] |
rs4351223 | 0.83[CEU][hapmap] |
rs4640862 | 0.86[EUR][1000 genomes] |
rs4707211 | 1.00[CEU][hapmap];0.83[CHB][hapmap];0.86[JPT][hapmap];0.86[EUR][1000 genomes] |
rs4707212 | 0.86[EUR][1000 genomes] |
rs6454472 | 0.85[EUR][1000 genomes] |
rs6909767 | 0.91[CEU][hapmap] |
rs6935918 | 0.91[CEU][hapmap] |
rs7452605 | 0.83[CEU][hapmap] |
rs7742201 | 0.82[CEU][hapmap] |
rs7742691 | 0.95[CEU][hapmap] |
rs7766485 | 0.96[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap];0.86[EUR][1000 genomes] |
rs7771612 | 0.83[CEU][hapmap] |
rs911927 | 0.92[CEU][hapmap] |
rs9294337 | 0.84[CEU][hapmap] |
rs9344533 | 0.91[CEU][hapmap] |
rs9344540 | 0.86[EUR][1000 genomes] |
rs9344542 | 0.87[CEU][hapmap];0.83[CHB][hapmap] |
rs9351065 | 0.83[CEU][hapmap] |
rs9353327 | 0.87[CEU][hapmap];0.83[CHB][hapmap] |
rs9362230 | 0.83[CEU][hapmap] |
rs9362232 | 0.87[EUR][1000 genomes] |
rs9444351 | 0.86[EUR][1000 genomes] |
rs9444352 | 1.00[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap];0.86[EUR][1000 genomes] |
rs9444354 | 0.87[EUR][1000 genomes] |
rs9450292 | 0.85[EUR][1000 genomes] |
rs9450302 | 0.92[CEU][hapmap] |
rs9450311 | 0.81[AMR][1000 genomes];0.93[EUR][1000 genomes] |

No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | nsv1028293 | chr6:86353958-86778912 | Flanking Active TSS Weak transcription Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 100 gene(s) | inside rSNPs | diseases |
2 | nsv538350 | chr6:86353958-86778912 | Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 100 gene(s) | inside rSNPs | diseases |
3 | esv3340782 | chr6:86424133-86428531 | Active TSS Weak transcription Enhancers Flanking Active TSS | Chromatin interactive region | n/a | inside rSNPs | diseases |
SNP | Gene | Cis/trans | Tissue | Source |
---|---|---|---|---|
rs9342045 | C6orf160 | cis | normal skin | skin_eQTL |
rs9342045 | SNHG5 | cis | multi-tissue | Pritchard |
rs9342045 | SNHG5 | cis | Muscle Skeletal | GTEx |
rs9342045 | SNHG5 | cis | lung | GTEx |
rs9342045 | SNHG5 | cis | Whole Blood | GTEx |
rs9342045 | SNHG5 | Cis_1M | lymphoblastoid | RTeQTL |
rs9342045 | SNHG5 | cis | Skin Sun Exposed Lower leg | GTEx |
rs9342045 | C6orf160 | cis | lesional skin | skin_eQTL |
rs9342045 | SNHG5 | cis | Adipose Subcutaneous | GTEx |
rs9342045 | SNHG5 | cis | Stomach | GTEx |
rs9342045 | SNHG5 | cis | Heart Left Ventricle | GTEx |
rs9342045 | SNHG5 | cis | Esophagus Mucosa | GTEx |
rs9342045 | SNHG5 | cis | Nerve Tibial | GTEx |
rs9342045 | C6orf160 | cis | uninvolved skin | skin_eQTL |
rs9342045 | SNHG5 | cis | Artery Tibial | GTEx |
rs9342045 | SNHG5 | cis | Esophagus Muscularis | GTEx |
rs9342045 | SNHG5 | cis | Thyroid | GTEx |
rs9342045 | SNHG5 | cis | Artery Aorta | GTEx |
No. | Chromosome Location | Chromatin state | Cell line | Tissue |
---|---|---|---|---|
1 | chr6:86425000-86425200 | Flanking Active TSS | Skeletal Muscle Female | skeletal muscle |