Variant report
| Variant | rs61988007 |
|---|---|
| Chromosome Location | chr14:38139394-38139395 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:6)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:6 , 50 per page) page:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr14:38139116..38141185-chr14:38142374..38143930,2 | MCF-7 | breast: | |
| 2 | chr14:38137638..38140285-chr14:38157919..38160073,2 | MCF-7 | breast: | |
| 3 | chr14:38060301..38063769-chr14:38137094..38139893,4 | MCF-7 | breast: | |
| 4 | chr14:38137632..38140312-chr14:38141019..38143766,2 | MCF-7 | breast: | |
| 5 | chr14:38060951..38065801-chr14:38133423..38140633,9 | MCF-7 | breast: | |
| 6 | chr14:38056260..38058013-chr14:38136356..38140465,3 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000139865 | Chromatin interaction |
| ENSG00000129514 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:9)
| rs_ID | r2[population] |
|---|---|
| rs12879553 | 1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs12892358 | 1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs12894238 | 0.90[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs1555334 | 0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs28538422 | 0.87[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs34551220 | 1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs34840952 | 0.90[AMR][1000 genomes] |
| rs34879326 | 0.90[AMR][1000 genomes] |
| rs35374466 | 0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
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| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv530038 | chr14:37590543-38336191 | Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 58 gene(s) | inside rSNPs | diseases |
| 2 | nsv832772 | chr14:38030300-38225921 | Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 49 gene(s) | inside rSNPs | diseases |
| 3 | nsv916985 | chr14:38052347-38838551 | Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 59 gene(s) | inside rSNPs | diseases |
| 4 | nsv564368 | chr14:38135050-38146748 | Enhancers Weak transcription | Chromatin interactive region | 2 gene(s) | inside rSNPs | n/a |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr14:38138600-38148200 | Weak transcription | IMR90 fetal lung fibroblasts Cell Line | lung |
