Variant report
| Variant | rs11125603 |
|---|---|
| Chromosome Location | chr2:56039930-56039931 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:28)
| rs_ID | r2[population] |
|---|---|
| rs10496051 | 1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes] |
| rs11125601 | 0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs11125602 | 0.97[ASN][1000 genomes] |
| rs12464737 | 0.97[ASN][1000 genomes] |
| rs12472090 | 0.89[AMR][1000 genomes] |
| rs12472893 | 0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs1346782 | 0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1430202 | 0.82[ASN][1000 genomes] |
| rs17047234 | 0.84[ASN][1000 genomes] |
| rs1946545 | 0.97[ASN][1000 genomes] |
| rs1985163 | 0.97[ASN][1000 genomes] |
| rs2009262 | 0.83[ASN][1000 genomes] |
| rs2115876 | 0.81[AMR][1000 genomes] |
| rs2115878 | 0.82[AMR][1000 genomes] |
| rs4146921 | 1.00[CHB][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes] |
| rs4146922 | 1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[ASN][1000 genomes] |
| rs4347871 | 0.93[ASN][1000 genomes] |
| rs58027672 | 0.93[ASN][1000 genomes] |
| rs62164463 | 0.91[ASN][1000 genomes] |
| rs62167713 | 0.97[ASN][1000 genomes] |
| rs6545522 | 0.81[AFR][1000 genomes];0.99[ASN][1000 genomes] |
| rs6545523 | 0.83[AMR][1000 genomes] |
| rs6708796 | 0.82[AMR][1000 genomes] |
| rs6724369 | 0.97[ASN][1000 genomes] |
| rs7560657 | 0.97[ASN][1000 genomes] |
| rs7563032 | 1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[ASN][1000 genomes] |
| rs7591694 | 0.86[ASN][1000 genomes] |
| rs9753383 | 0.95[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv531374 | chr2:55653723-56299784 | Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 56 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr2:56038800-56047200 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
