Variant report
| Variant | rs58089987 |
|---|---|
| Chromosome Location | chr15:50679052-50679053 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:5)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:5 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr15:50647379..50649166-chr15:50677732..50679264,2 | K562 | blood: | |
| 2 | chr15:50672587..50675506-chr15:50676682..50679536,2 | MCF-7 | breast: | |
| 3 | chr15:50677614..50679123-chr15:50679708..50682043,2 | MCF-7 | breast: | |
| 4 | chr15:50647633..50650603-chr15:50677912..50679952,3 | MCF-7 | breast: | |
| 5 | chr15:50677655..50679701-chr15:50681289..50683239,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000104064 | Chromatin interaction |
| ENSG00000244879 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:19)
| rs_ID | r2[population] |
|---|---|
| rs10083714 | 0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes] |
| rs10152574 | 0.91[AMR][1000 genomes];0.86[ASN][1000 genomes] |
| rs11491094 | 0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[ASN][1000 genomes] |
| rs55697237 | 0.91[AMR][1000 genomes];0.86[ASN][1000 genomes] |
| rs55934154 | 0.91[AMR][1000 genomes];0.95[ASN][1000 genomes] |
| rs55950921 | 0.91[AMR][1000 genomes];0.86[ASN][1000 genomes] |
| rs74012366 | 0.91[AMR][1000 genomes];0.86[ASN][1000 genomes] |
| rs74012367 | 0.91[AMR][1000 genomes];0.86[ASN][1000 genomes] |
| rs74012371 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes] |
| rs74012372 | 0.97[AFR][1000 genomes];1.00[ASN][1000 genomes] |
| rs8029259 | 0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[ASN][1000 genomes] |
| rs8029439 | 0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[ASN][1000 genomes] |
| rs8032042 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes] |
| rs8032520 | 0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes] |
| rs8032602 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes] |
| rs8032640 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes] |
| rs8033413 | 0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes] |
| rs8033932 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes] |
| rs9652452 | 0.84[AMR][1000 genomes];0.98[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1044277 | chr15:49921547-50702386 | Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 107 gene(s) | inside rSNPs | diseases |
| 2 | nsv542380 | chr15:49921547-50702386 | Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 107 gene(s) | inside rSNPs | diseases |
| 3 | nsv1045456 | chr15:50592472-51019873 | Strong transcription Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 121 gene(s) | inside rSNPs | diseases |
| 4 | nsv948579 | chr15:50645530-51045564 | Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 119 gene(s) | inside rSNPs | diseases |
| 5 | nsv524613 | chr15:50656449-50868779 | Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 31 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr15:50671600-50682800 | Weak transcription | GM12878-XiMat | blood |
| 2 | chr15:50677000-50690400 | Weak transcription | Right Atrium | heart |
