Variant report
| Variant | rs12248400 |
|---|---|
| Chromosome Location | chr10:91587378-91587379 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:2)
- 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 | chr10:91585659..91588157-chr10:92199771..92201481,2 | MCF-7 | breast: |
(count:2 , 50 per page) page:
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| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-KIF20B-2 | chr10:91586955-91590598 | NONHSAT015541 |
| 2 | lnc-KIF20B-2 | chr10:91586955-91590598 | NONHSAT015542 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:12)
| rs_ID | r2[population] |
|---|---|
| rs11185900 | 0.93[AFR][1000 genomes] |
| rs12244271 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs12251451 | 0.95[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs12253366 | 1.00[JPT][hapmap] |
| rs12264075 | 1.00[AMR][1000 genomes] |
| rs12264144 | 1.00[AMR][1000 genomes] |
| rs1326197 | 1.00[AFR][1000 genomes] |
| rs17126655 | 1.00[JPT][hapmap] |
| rs55916933 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs56204636 | 0.83[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs57838430 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs74147676 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1046241 | chr10:91478562-91614437 | Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 6 gene(s) | inside rSNPs | diseases |
| 2 | nsv869080 | chr10:91498641-91712834 | Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 10 gene(s) | inside rSNPs | diseases |
| 3 | nsv1036581 | chr10:91526705-91691536 | Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 9 gene(s) | inside rSNPs | diseases |
| 4 | nsv1043571 | chr10:91568555-92036154 | Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 16 gene(s) | inside rSNPs | diseases |
| 5 | nsv551874 | chr10:91570211-92036154 | Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 16 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
