Variant report
| Variant | rs56042714 |
|---|---|
| Chromosome Location | chr4:106406942-106406943 |
| allele | A/C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:2)
- 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 | chr4:106394786..106396440-chr4:106406925..106408517,2 | MCF-7 | breast: |
(count:2 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-PPA2-1 | chr4:106406158-106407514 | ENSG00000245205 |
| 2 | lnc-PPA2-1 | chr4:106406853-106407102 | NONHSAT097678 |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000138777 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:26)
| rs_ID | r2[population] |
|---|---|
| rs11097888 | 1.00[EUR][1000 genomes] |
| rs12108622 | 1.00[EUR][1000 genomes] |
| rs17035601 | 1.00[EUR][1000 genomes] |
| rs17035603 | 1.00[EUR][1000 genomes] |
| rs17035607 | 1.00[EUR][1000 genomes] |
| rs17035612 | 1.00[EUR][1000 genomes] |
| rs17035614 | 1.00[EUR][1000 genomes] |
| rs17035625 | 1.00[EUR][1000 genomes] |
| rs28415199 | 0.90[EUR][1000 genomes] |
| rs35571699 | 0.90[EUR][1000 genomes] |
| rs57728408 | 0.87[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs59758094 | 0.89[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs60063074 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs72950599 | 1.00[EUR][1000 genomes] |
| rs72952282 | 1.00[EUR][1000 genomes] |
| rs72952292 | 1.00[EUR][1000 genomes] |
| rs72952299 | 1.00[EUR][1000 genomes] |
| rs72954316 | 1.00[EUR][1000 genomes] |
| rs73836215 | 1.00[EUR][1000 genomes] |
| rs73836216 | 1.00[EUR][1000 genomes] |
| rs73836268 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs73836269 | 0.97[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs73836273 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs73836279 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs7671891 | 1.00[EUR][1000 genomes] |
| rs9685855 | 1.00[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 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 |
| 2 | nsv1002228 | chr4:106346206-106433381 | ZNF genes & repeats Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 19 gene(s) | inside rSNPs | diseases |
| 3 | nsv964078 | chr4:106404397-106407289 | ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
