Variant report
| Variant | rs57891485 |
|---|---|
| Chromosome Location | chr5:90535735-90535736 |
| allele | C/T |
| 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 | chr5:90528653..90536149-chr5:90676184..90681293,9 | MCF-7 | breast: | |
| 2 | chr5:90535308..90537447-chr5:90538676..90541524,2 | MCF-7 | breast: | |
| 3 | chr5:90528721..90530817-chr5:90532953..90535941,2 | K562 | blood: | |
| 4 | chr5:90527291..90547553-chr5:90674171..90681359,33 | K562 | blood: | |
| 5 | chr5:90534215..90536500-chr5:90559595..90561916,2 | K562 | blood: | |
| 6 | chr5:90526439..90536882-chr5:90674746..90681872,22 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000113369 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:24)
| rs_ID | r2[population] |
|---|---|
| rs10059932 | 1.00[EUR][1000 genomes] |
| rs10072875 | 0.92[EUR][1000 genomes] |
| rs10473941 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs10473942 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs10474344 | 0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs10474345 | 0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs13362365 | 0.97[EUR][1000 genomes] |
| rs28379688 | 0.97[EUR][1000 genomes] |
| rs28490868 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs2973471 | 0.83[EUR][1000 genomes] |
| rs4392660 | 0.83[EUR][1000 genomes] |
| rs55657470 | 1.00[EUR][1000 genomes] |
| rs55818598 | 0.97[EUR][1000 genomes] |
| rs55989779 | 1.00[EUR][1000 genomes] |
| rs56082303 | 0.91[EUR][1000 genomes] |
| rs56320224 | 0.93[AMR][1000 genomes];0.89[EUR][1000 genomes] |
| rs56410910 | 0.86[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs58520625 | 0.86[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs59967608 | 0.97[EUR][1000 genomes] |
| rs6877491 | 0.89[EUR][1000 genomes] |
| rs73773329 | 0.89[EUR][1000 genomes] |
| rs73773330 | 0.91[EUR][1000 genomes] |
| rs73773334 | 0.86[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs73773337 | 1.00[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 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 | nsv1024813 | chr5:90321535-90870739 | Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 84 gene(s) | inside rSNPs | diseases |
| 2 | nsv537806 | chr5:90321535-90870739 | Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 84 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr5:90525000-90542800 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
| 2 | chr5:90530800-90539600 | Weak transcription | Pancreas | Pancrea |
