Variant report
| Variant | rs1854337 |
|---|---|
| Chromosome Location | chr1:179509749-179509750 |
| allele | A/G |
| 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:34)
| rs_ID | r2[population] |
|---|---|
| rs10494517 | 0.86[ASN][1000 genomes] |
| rs10494518 | 0.86[ASN][1000 genomes] |
| rs10913815 | 0.88[ASN][1000 genomes] |
| rs11581440 | 0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs11808258 | 0.82[ASN][1000 genomes] |
| rs12566954 | 0.86[ASN][1000 genomes] |
| rs1410585 | 0.83[ASN][1000 genomes] |
| rs1410587 | 0.88[ASN][1000 genomes] |
| rs1410588 | 0.88[ASN][1000 genomes] |
| rs16854244 | 0.86[ASN][1000 genomes] |
| rs2149399 | 0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs2209922 | 0.86[ASN][1000 genomes] |
| rs4111171 | 0.81[ASN][1000 genomes] |
| rs41267596 | 0.86[ASN][1000 genomes] |
| rs4651042 | 0.86[ASN][1000 genomes] |
| rs4652405 | 0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs4652406 | 0.86[ASN][1000 genomes] |
| rs4652407 | 0.86[ASN][1000 genomes] |
| rs4652408 | 0.86[ASN][1000 genomes] |
| rs4652412 | 0.82[ASN][1000 genomes] |
| rs55908143 | 0.86[ASN][1000 genomes] |
| rs56071531 | 0.86[ASN][1000 genomes] |
| rs57340322 | 0.83[ASN][1000 genomes] |
| rs6425572 | 0.86[ASN][1000 genomes] |
| rs6425574 | 0.86[ASN][1000 genomes] |
| rs6658180 | 0.86[ASN][1000 genomes] |
| rs6662262 | 0.88[ASN][1000 genomes] |
| rs6665833 | 0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs7548654 | 0.85[ASN][1000 genomes] |
| rs7551440 | 0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs7551610 | 0.82[ASN][1000 genomes] |
| rs928017 | 0.88[ASN][1000 genomes] |
| rs964983 | 0.86[ASN][1000 genomes] |
| rs964984 | 0.86[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 | nsv522746 | chr1:179501365-179518459 | Weak transcription Enhancers ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:4)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs1854337 | TDRD5 | cis | Adipose Subcutaneous | GTEx |
| rs1854337 | TDRD5 | cis | Thyroid | GTEx |
| rs1854337 | TDRD5 | cis | Nerve Tibial | GTEx |
| rs1854337 | TDRD5 | cis | Artery Tibial | GTEx |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr1:179487200-179515000 | Weak transcription | Rectal Mucosa Donor 31 | rectum |
| 2 | chr1:179509600-179510400 | ZNF genes & repeats | ES-UCSF4 Cell Line | embryonic stem cell |
| 3 | chr1:179509600-179510600 | ZNF genes & repeats | H9 Cell Line | embryonic stem cell |
