Variant report
| Variant | rs17839078 |
|---|---|
| Chromosome Location | chr4:106456653-106456654 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr4:106456619..106459563-chr4:106461731..106463301,3 | K562 | blood: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:26)
| rs_ID | r2[population] |
|---|---|
| rs1352707 | 0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1388040 | 1.00[ASN][1000 genomes] |
| rs1490599 | 1.00[ASN][1000 genomes] |
| rs1490600 | 1.00[ASN][1000 genomes] |
| rs1490601 | 1.00[ASN][1000 genomes] |
| rs1490602 | 1.00[ASN][1000 genomes] |
| rs17035753 | 0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs17584200 | 0.99[ASN][1000 genomes] |
| rs2189228 | 0.96[ASN][1000 genomes] |
| rs2866798 | 0.96[ASN][1000 genomes] |
| rs2866799 | 0.96[ASN][1000 genomes] |
| rs3796916 | 0.89[ASN][1000 genomes] |
| rs3796917 | 0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs3822274 | 0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs3960769 | 0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs3974414 | 0.96[ASN][1000 genomes] |
| rs4699186 | 0.96[ASN][1000 genomes] |
| rs4699187 | 0.96[ASN][1000 genomes] |
| rs4699188 | 0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs6533204 | 0.97[ASN][1000 genomes] |
| rs6533205 | 0.97[ASN][1000 genomes] |
| rs6817760 | 1.00[ASN][1000 genomes] |
| rs6853877 | 1.00[ASN][1000 genomes] |
| rs7666509 | 0.81[ASN][1000 genomes] |
| rs7672413 | 0.96[ASN][1000 genomes] |
| rs7686705 | 0.99[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv879699 | chr4:106212562-106698892 | Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 41 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs17839078 | PPA2 | Cis_1M | lymphoblastoid | RTeQTL |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr4:106448600-106466200 | Weak transcription | Pancreas | Pancrea |
| 2 | chr4:106448800-106458000 | Weak transcription | Gastric | stomach |
