Variant report
| Variant | rs1932225 |
|---|---|
| Chromosome Location | chr6:86438764-86438765 |
| allele | A/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:1)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:1 , 50 per page) page:
1
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr6:86387465..86389372-chr6:86436814..86438832,2 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000217334 | TF binding region |
| ENSG00000203875 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:16)
| rs_ID | r2[population] |
|---|---|
| rs10944136 | 0.84[ASN][1000 genomes] |
| rs12190603 | 0.84[ASN][1000 genomes] |
| rs13207173 | 0.85[ASN][1000 genomes] |
| rs2324817 | 0.85[ASN][1000 genomes] |
| rs34795473 | 0.85[ASN][1000 genomes] |
| rs4098044 | 0.85[ASN][1000 genomes] |
| rs4383777 | 0.90[AMR][1000 genomes];0.90[ASN][1000 genomes] |
| rs6454486 | 0.91[AMR][1000 genomes];0.92[ASN][1000 genomes] |
| rs6454487 | 0.83[ASN][1000 genomes] |
| rs6454488 | 0.85[ASN][1000 genomes] |
| rs66807489 | 0.83[ASN][1000 genomes] |
| rs9342046 | 0.90[AMR][1000 genomes];0.90[ASN][1000 genomes] |
| rs9362239 | 0.90[AMR][1000 genomes];0.92[ASN][1000 genomes] |
| rs9450318 | 0.91[AMR][1000 genomes];0.90[ASN][1000 genomes] |
| rs9450319 | 0.88[AMR][1000 genomes];0.91[ASN][1000 genomes] |
| rs9647601 | 0.84[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
1
| 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 |
mRNA abundance (count:13)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs1932225 | SNHG5 | cis | Esophagus Muscularis | GTEx |
| rs1932225 | SNHG5 | cis | lung | GTEx |
| rs1932225 | SNHG5 | cis | Artery Tibial | GTEx |
| rs1932225 | SNHG5 | cis | Muscle Skeletal | GTEx |
| rs1932225 | SNHG5 | cis | Skin Sun Exposed Lower leg | GTEx |
| rs1932225 | SNHG5 | cis | Esophagus Mucosa | GTEx |
| rs1932225 | SNHG5 | cis | Thyroid | GTEx |
| rs1932225 | SNHG5 | cis | Whole Blood | GTEx |
| rs1932225 | SNHG5 | cis | Artery Aorta | GTEx |
| rs1932225 | SNHG5 | Cis_1M | lymphoblastoid | RTeQTL |
| rs1932225 | SNHG5 | cis | Heart Left Ventricle | GTEx |
| rs1932225 | SNHG5 | cis | Adipose Subcutaneous | GTEx |
| rs1932225 | SNHG5 | cis | Nerve Tibial | GTEx |
Chromatin state (count:0 , 50 per page) page:
| No data |
