Variant report
| Variant | rs61830458 |
|---|---|
| Chromosome Location | chr1:220462192-220462193 |
| allele | G/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:2)
- LncRNA region (count:1)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:2 , 50 per page) page:
1
(count:1 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-IARS2-4 | chr1:220462045-220462668 | NONHSAT009596 |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000118873 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:16)
| rs_ID | r2[population] |
|---|---|
| rs10779403 | 0.82[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs11118517 | 0.82[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs11118519 | 0.82[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs12409579 | 0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs12411005 | 0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs1473073 | 0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs17007362 | 0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes] |
| rs2244072 | 0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs4846621 | 0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs61832260 | 0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs61832262 | 0.88[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs6541128 | 0.82[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs6541130 | 0.82[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs7529864 | 0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs7554794 | 0.82[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs9793772 | 0.82[AMR][1000 genomes];0.91[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 | nsv1001681 | chr1:220425057-220548325 | Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
| 2 | nsv535298 | chr1:220425057-220548325 | Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr1:220457600-220463600 | Weak transcription | Cortex derived primary cultured neurospheres | brain |
