Variant report
| Variant | rs10877387 |
|---|---|
| Chromosome Location | chr12:60440473-60440474 |
| allele | C/G |
| 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:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr12:60439937..60442180-chr12:60446699..60448272,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:11)
| rs_ID | r2[population] |
|---|---|
| rs10784017 | 0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs10877376 | 0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes] |
| rs10877378 | 0.85[AMR][1000 genomes];0.81[EUR][1000 genomes] |
| rs1105925 | 0.93[AMR][1000 genomes];0.95[EUR][1000 genomes] |
| rs11173300 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs35898855 | 0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs4525272 | 0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs7302440 | 0.83[ASN][1000 genomes] |
| rs73106135 | 0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs73121599 | 0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs7970962 | 0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:6 , 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 | nsv869425 | chr12:59746898-60479741 | Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 22 gene(s) | inside rSNPs | diseases |
| 2 | nsv516042 | chr12:60354307-60459370 | Flanking Active TSS Enhancers Strong transcription Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS | TF binding regionCpG islandChromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
| 3 | nsv899136 | chr12:60373244-60483607 | Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer | TF binding regionChromatin interactive region | 2 gene(s) | inside rSNPs | diseases |
| 4 | nsv559103 | chr12:60383069-60483607 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription | TF binding regionChromatin interactive region | 2 gene(s) | inside rSNPs | diseases |
| 5 | nsv1048137 | chr12:60432594-60515455 | Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 6 | nsv983487 | chr12:60434760-60442347 | Weak transcription Flanking Active TSS Enhancers | Chromatin interactive region | n/a | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr12:60437000-60442400 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
