Variant report
| Variant | rs72915989 |
|---|---|
| Chromosome Location | chr2:55662315-55662316 |
| allele | A/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:1)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-CCDC88A-1 | chr2:55662292-55662758 | NONHSAT070788 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:22)
| rs_ID | r2[population] |
|---|---|
| rs17046835 | 0.90[AFR][1000 genomes] |
| rs17046888 | 0.84[AFR][1000 genomes] |
| rs17046898 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs57623398 | 0.81[AFR][1000 genomes] |
| rs60920006 | 0.87[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs6714932 | 0.87[AFR][1000 genomes] |
| rs6719677 | 0.83[AFR][1000 genomes] |
| rs6734415 | 1.00[AMR][1000 genomes] |
| rs6735009 | 0.89[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs72915982 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs72915986 | 0.93[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs72915988 | 0.87[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs72915991 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs72918975 | 0.81[AFR][1000 genomes] |
| rs72923130 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs72923150 | 0.85[AFR][1000 genomes] |
| rs72923183 | 0.87[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs72923194 | 0.87[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs72929306 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs7562535 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs7589558 | 0.89[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs7600665 | 0.90[AFR][1000 genomes];1.00[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1006170 | chr2:55530179-55809251 | Strong transcription Weak transcription Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 29 gene(s) | inside rSNPs | diseases |
| 2 | nsv520581 | chr2:55622825-55903016 | Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 42 gene(s) | inside rSNPs | diseases |
| 3 | nsv531374 | chr2:55653723-56299784 | Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 56 gene(s) | inside rSNPs | diseases |
| 4 | nsv961778 | chr2:55659501-55668562 | Bivalent/Poised TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS | TF binding regionChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
