Variant report
| Variant | rs1590784 |
|---|---|
| Chromosome Location | chr1:179462801-179462802 |
| allele | G/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:1)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:1 , 50 per page) page:
1
| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | E2F4 | chr1:179462542-179462948 | MCF10A-Er-Src | breast: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000269064 | TF binding region |
rSNPs within LD-proxies of this variant (count:10)
| rs_ID | r2[population] |
|---|---|
| rs10913764 | 0.92[ASN][1000 genomes] |
| rs10913805 | 0.98[ASN][1000 genomes] |
| rs1329277 | 0.86[AFR][1000 genomes];0.98[ASN][1000 genomes] |
| rs3898486 | 0.98[ASN][1000 genomes] |
| rs4268319 | 0.89[ASN][1000 genomes] |
| rs4504843 | 0.89[ASN][1000 genomes] |
| rs4651038 | 0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs4652382 | 0.89[ASN][1000 genomes] |
| rs6425558 | 0.92[ASN][1000 genomes] |
| rs6683623 | 0.92[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv466217 | chr1:179371973-179477921 | ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 2 | nsv548297 | chr1:179371973-179477921 | Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 3 | esv1826150 | chr1:179455645-179469253 | Inactive region | TF binding regionCpG islandChromatin interactive region | 2 gene(s) | inside rSNPs | n/a |
| 4 | esv1820823 | chr1:179455645-179479803 | Enhancers Weak transcription Flanking Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs1590784 | TDRD5 | cis | Artery Tibial | GTEx |
Chromatin state (count:0 , 50 per page) page:
| No data |
