Variant report
| Variant | rs1987680 |
|---|---|
| Chromosome Location | chr3:105818497-105818498 |
| 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:25)
| rs_ID | r2[population] |
|---|---|
| rs10487813 | 0.85[EUR][1000 genomes] |
| rs1079911 | 0.85[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs10953992 | 0.83[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs10953993 | 0.84[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs12669942 | 0.84[EUR][1000 genomes] |
| rs12672131 | 0.84[EUR][1000 genomes] |
| rs12672147 | 0.84[EUR][1000 genomes] |
| rs1540352 | 0.85[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs1541475 | 0.85[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs1541476 | 0.85[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs17554581 | 0.85[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs1860484 | 0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs2191459 | 0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs4731147 | 0.83[EUR][1000 genomes] |
| rs6466895 | 0.85[EUR][1000 genomes];0.88[ASN][1000 genomes] |
| rs6466896 | 0.85[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs67432719 | 0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs6944209 | 0.84[EUR][1000 genomes];0.80[ASN][1000 genomes] |
| rs6948425 | 0.85[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs6967086 | 0.87[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs723881 | 0.87[EUR][1000 genomes];0.86[ASN][1000 genomes] |
| rs7782625 | 0.85[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs7789434 | 0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs7802495 | 0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs7809024 | 0.88[EUR][1000 genomes];0.87[ASN][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 | nsv877312 | chr3:105560638-105916506 | Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 2 | nsv999883 | chr3:105687634-106007792 | Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer | Chromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 3 | nsv1011888 | chr3:105718749-106331879 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 4 | nsv536679 | chr3:105718749-106331879 | Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 5 | nsv822215 | chr3:105785478-105871481 | Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers | Chromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:105813000-105821400 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
