Variant report
| Variant | rs10255353 |
|---|---|
| Chromosome Location | chr7:41309918-41309919 |
| allele | A/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:23)
| rs_ID | r2[population] |
|---|---|
| rs10214983 | 0.87[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs10215204 | 0.84[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs10225596 | 0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs10228281 | 0.81[AMR][1000 genomes] |
| rs10237505 | 0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs10244988 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10245806 | 0.81[AMR][1000 genomes];0.81[EUR][1000 genomes] |
| rs10245865 | 0.81[AMR][1000 genomes];0.81[EUR][1000 genomes] |
| rs10260526 | 0.81[AMR][1000 genomes] |
| rs10266295 | 0.81[EUR][1000 genomes] |
| rs10266444 | 0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs2107724 | 0.87[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs2158559 | 0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs28482024 | 1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs28534868 | 0.85[EUR][1000 genomes] |
| rs28537692 | 0.86[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs28662380 | 0.81[AMR][1000 genomes] |
| rs28689699 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs35759722 | 0.82[ASN][1000 genomes] |
| rs58773259 | 0.81[AMR][1000 genomes] |
| rs61187499 | 0.81[AMR][1000 genomes] |
| rs61586765 | 0.81[AMR][1000 genomes] |
| rs73089893 | 0.92[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 | nsv887989 | chr7:41125447-41337044 | Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| 2 | nsv1028983 | chr7:41165668-41635954 | Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS | Chromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 3 | nsv534465 | chr7:41224437-41443498 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription | Chromatin interactive region | 3 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:3)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs10255353 | TBRG4 | cis | cerebellum | SCAN |
| rs10255353 | MYL7 | cis | parietal | SCAN |
| rs10255353 | NPC1L1 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr7:41296800-41343800 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
