Variant report
| Variant | rs9396105 |
|---|---|
| Chromosome Location | chr6:55408559-55408560 |
| 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 | chr6:55408291..55411136-chr6:55443086..55445470,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000146151 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:27)
| rs_ID | r2[population] |
|---|---|
| rs10807496 | 0.87[ASN][1000 genomes] |
| rs13213275 | 0.81[EUR][1000 genomes] |
| rs3807019 | 0.81[EUR][1000 genomes] |
| rs3925002 | 0.94[ASN][1000 genomes] |
| rs4144579 | 0.89[ASN][1000 genomes] |
| rs4144580 | 0.89[ASN][1000 genomes] |
| rs4320370 | 0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs4323307 | 0.94[ASN][1000 genomes] |
| rs4342412 | 0.85[ASN][1000 genomes] |
| rs4398737 | 0.87[ASN][1000 genomes] |
| rs4410726 | 0.87[ASN][1000 genomes] |
| rs4489148 | 0.85[ASN][1000 genomes] |
| rs4599642 | 0.87[ASN][1000 genomes] |
| rs6459081 | 0.81[EUR][1000 genomes] |
| rs7739933 | 0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs7749276 | 0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs7755709 | 0.89[ASN][1000 genomes] |
| rs7756162 | 0.81[EUR][1000 genomes] |
| rs7776071 | 0.89[ASN][1000 genomes] |
| rs9367638 | 0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs9367641 | 0.89[ASN][1000 genomes] |
| rs9367642 | 0.87[ASN][1000 genomes] |
| rs9382507 | 0.96[ASN][1000 genomes] |
| rs9396107 | 1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs9396108 | 0.89[ASN][1000 genomes] |
| rs9464265 | 0.87[ASN][1000 genomes] |
| rs9475314 | 0.81[EUR][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 | nsv1034037 | chr6:55222409-56069600 | Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 7 gene(s) | inside rSNPs | diseases |
| 2 | nsv948358 | chr6:55351282-55477277 | Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats | TF binding regionCpG islandChromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
| 3 | nsv1026411 | chr6:55372845-55653498 | Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 4 | esv3328151 | chr6:55406868-55409316 | Weak transcription Enhancers | Chromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
| 5 | esv3437260 | chr6:55407243-55409091 | Weak transcription Enhancers | Chromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:55384400-55410200 | Weak transcription | Pancreatic Islets | Pancreatic Islet |
| 2 | chr6:55400400-55418600 | Weak transcription | Breast Myoepithelial Primary Cells | Breast |
| 3 | chr6:55408400-55408800 | Enhancers | ES-I3 Cell Line | embryonic stem cell |
