Variant report
| Variant | rs55654117 |
|---|---|
| Chromosome Location | chr10:54976003-54976004 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- 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 | chr10:54974391..54976394-chr10:54976441..54978497,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:23)
| rs_ID | r2[population] |
|---|---|
| rs10733922 | 0.98[ASN][1000 genomes] |
| rs10824938 | 0.85[ASN][1000 genomes] |
| rs10824939 | 0.90[ASN][1000 genomes] |
| rs10824940 | 0.88[ASN][1000 genomes] |
| rs10824941 | 0.88[ASN][1000 genomes] |
| rs10824942 | 0.90[ASN][1000 genomes] |
| rs10824943 | 0.88[ASN][1000 genomes] |
| rs10824944 | 0.88[ASN][1000 genomes] |
| rs10824951 | 0.81[EUR][1000 genomes] |
| rs11003446 | 0.88[ASN][1000 genomes] |
| rs11003453 | 0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs11812249 | 0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs11814008 | 0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs1903918 | 0.90[ASN][1000 genomes] |
| rs1903919 | 0.90[ASN][1000 genomes] |
| rs1903920 | 0.88[ASN][1000 genomes] |
| rs2086059 | 0.88[ASN][1000 genomes] |
| rs2384165 | 0.92[ASN][1000 genomes] |
| rs7092616 | 0.88[ASN][1000 genomes] |
| rs72787112 | 0.89[EUR][1000 genomes] |
| rs72787116 | 0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs72804159 | 0.90[AFR][1000 genomes];0.85[EUR][1000 genomes] |
| rs7922068 | 0.91[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | esv2752952 | chr10:54900994-55497594 | Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| 2 | nsv831878 | chr10:54902106-55085586 | Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 3 | nsv1054455 | chr10:54932474-55001559 | Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS | Chromatin interactive region | n/a | inside rSNPs | n/a |
| 4 | nsv895408 | chr10:54938398-54999514 | Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer | Chromatin interactive region | n/a | inside rSNPs | n/a |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr10:54966400-54981600 | Weak transcription | ES-UCSF4 Cell Line | embryonic stem cell |
