Variant report
| Variant | rs7770592 |
|---|---|
| Chromosome Location | chr6:29395747-29395748 |
| 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:20)
| rs_ID | r2[population] |
|---|---|
| rs10807055 | 0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10946990 | 0.85[EUR][1000 genomes] |
| rs12193979 | 0.83[EUR][1000 genomes] |
| rs12202249 | 0.83[EUR][1000 genomes] |
| rs12207410 | 0.83[EUR][1000 genomes] |
| rs1362073 | 1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1592404 | 0.82[EUR][1000 genomes] |
| rs1592407 | 0.87[AFR][1000 genomes] |
| rs2097771 | 0.87[AFR][1000 genomes] |
| rs2394609 | 0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7349863 | 0.86[EUR][1000 genomes] |
| rs7349876 | 0.86[EUR][1000 genomes] |
| rs7349908 | 0.85[EUR][1000 genomes] |
| rs7754054 | 0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs9295805 | 0.85[EUR][1000 genomes] |
| rs9348829 | 0.82[EUR][1000 genomes] |
| rs9380124 | 1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs9393957 | 0.83[EUR][1000 genomes] |
| rs9393958 | 0.83[EUR][1000 genomes] |
| rs9393960 | 0.85[EUR][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 | nsv830624 | chr6:29274525-29445565 | Enhancers Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 11 gene(s) | inside rSNPs | diseases |
| 2 | nsv965635 | chr6:29395355-29402762 | Enhancers Weak transcription | TF binding regionCpG islandlncRNA | 3 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:3)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs7770592 | HIST1H2BL | cis | cerebellum | SCAN |
| rs7770592 | ZFP57 | Cis_1M | lymphoblastoid | RTeQTL |
| rs7770592 | ZKSCAN3 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:29392600-29399800 | Weak transcription | iPS DF 6.9 Cell Line | embryonic stem cell |
