Variant report
| Variant | rs55850239 |
|---|---|
| Chromosome Location | chr9:86336751-86336752 |
| 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:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr9:86320463..86323415-chr9:86335259..86337466,2 | K562 | blood: | |
| 2 | chr9:86321361..86326251-chr9:86334374..86342273,10 | MCF-7 | breast: | |
| 3 | chr9:86330301..86334154-chr9:86335293..86340280,4 | K562 | blood: | |
| 4 | chr9:86332615..86334154-chr9:86334869..86336793,2 | K562 | blood: | |
| 5 | chr9:86329597..86331819-chr9:86336407..86338255,2 | MCF-7 | breast: | |
| 6 | chr9:86335087..86337394-chr9:86338050..86339741,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000135018 | Chromatin interaction |
| ENSG00000254473 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:13)
| rs_ID | r2[population] |
|---|---|
| rs1421144 | 0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs2287372 | 0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs55644512 | 0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs56960569 | 0.92[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs58576276 | 0.92[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs59948934 | 0.92[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs62561873 | 0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs62561874 | 0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs62561875 | 0.83[AMR][1000 genomes];0.80[ASN][1000 genomes] |
| rs62561880 | 0.92[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs62561921 | 0.92[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs7020313 | 0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs7040035 | 0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 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 | nsv1044639 | chr9:86252505-86412041 | Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 21 gene(s) | inside rSNPs | diseases |
| 2 | nsv893513 | chr9:86298632-86433459 | Enhancers Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 23 gene(s) | inside rSNPs | diseases |
| 3 | nsv973432 | chr9:86330626-86371524 | Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Flanking Active TSS | TF binding regionChromatin interactive region | 4 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr9:86336400-86337600 | Weak transcription | HepG2 | liver |
