Variant report
| Variant | rs1360260 |
|---|---|
| Chromosome Location | chr9:102222771-102222772 |
| allele | A/C |
| 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 | chr9:102221979..102223697-chr9:102232085..102234861,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:21)
| rs_ID | r2[population] |
|---|---|
| rs1025901 | 0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs1025902 | 0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs10441760 | 0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs10441761 | 0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs10760684 | 0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs10760685 | 0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs10819672 | 0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs10819674 | 0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs10988829 | 0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs1530379 | 0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs1972233 | 0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs4743345 | 0.82[EUR][1000 genomes] |
| rs4743347 | 0.81[ASN][1000 genomes] |
| rs4743348 | 0.82[EUR][1000 genomes] |
| rs4743353 | 0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs7847405 | 0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs7857445 | 0.83[EUR][1000 genomes] |
| rs7858078 | 0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs7862197 | 0.81[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs7866560 | 0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs878449 | 0.83[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv831667 | chr9:102068047-102285691 | Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| 2 | nsv6636 | chr9:102197504-102242604 | Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer | Chromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs1360260 | ERP44 | cis | cerebellum | SCAN |
| rs1360260 | STX17 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr9:102222400-102226800 | Weak transcription | Fetal Brain Male | brain |
| 2 | chr9:102222400-102227600 | Weak transcription | Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells | embryonic stem cell |
