Variant report
| Variant | rs6935044 |
|---|---|
| Chromosome Location | chr6:45650971-45650972 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:1)
- 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 | chr6:45388238..45390141-chr6:45649008..45651079,2 | MCF-7 | breast: |
(count:1 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-RUNX2-3 | chr6:45649094-45651012 | l_3186_chr6:45649093-45652486_testes |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000124813 | Chromatin interaction |
| ENSG00000271857 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:13)
| rs_ID | r2[population] |
|---|---|
| rs12333018 | 0.91[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs1388241 | 0.82[ASN][1000 genomes] |
| rs1388242 | 0.85[CEU][hapmap] |
| rs1388244 | 0.91[CEU][hapmap] |
| rs16873615 | 0.95[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs16873645 | 0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs2396505 | 0.83[CEU][hapmap] |
| rs59186161 | 0.94[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6903700 | 0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6923368 | 0.94[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs73444590 | 0.82[ASN][1000 genomes] |
| rs9472536 | 0.93[EUR][1000 genomes] |
| rs9472556 | 0.93[EUR][1000 genomes];0.90[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1028393 | chr6:44875558-45822335 | Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 38 gene(s) | inside rSNPs | diseases |
| 2 | nsv538211 | chr6:44875558-45822335 | ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 38 gene(s) | inside rSNPs | diseases |
| 3 | nsv532024 | chr6:45475088-45982640 | Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 21 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:45650400-45658200 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
