Variant report
| Variant | rs668590 |
|---|---|
| Chromosome Location | chr1:197220598-197220599 |
| allele | A/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:2)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
(count:2 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-CFHR5-4 | chr1:197220421-197220953 | NONHSAT008618 |
| 2 | lnc-CFHR5-4 | chr1:197220421-197221152 | NONHSAT008619 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:22)
| rs_ID | r2[population] |
|---|---|
| rs10754219 | 0.83[YRI][hapmap] |
| rs1415214 | 0.81[YRI][hapmap] |
| rs1764622 | 0.82[YRI][hapmap] |
| rs1764623 | 0.88[YRI][hapmap] |
| rs1764629 | 0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes] |
| rs1764786 | 0.84[YRI][hapmap] |
| rs1764800 | 1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs476390 | 1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes] |
| rs482526 | 0.85[YRI][hapmap] |
| rs510135 | 1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes] |
| rs518149 | 1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes] |
| rs550098 | 0.88[YRI][hapmap] |
| rs552708 | 0.89[AMR][1000 genomes] |
| rs568757 | 0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs570845 | 0.86[YRI][hapmap] |
| rs571106 | 0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes] |
| rs580067 | 0.82[YRI][hapmap] |
| rs615647 | 1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes] |
| rs616675 | 1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes] |
| rs643025 | 0.88[YRI][hapmap] |
| rs658409 | 0.80[YRI][hapmap] |
| rs6678066 | 0.87[EUR][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 | nsv528460 | chr1:196542567-197446702 | Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 26 gene(s) | inside rSNPs | diseases |
| 2 | nsv873072 | chr1:197079671-197221248 | Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 12 gene(s) | inside rSNPs | diseases |
| 3 | nsv873073 | chr1:197107074-197221248 | Flanking Active TSS Strong transcription Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 12 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr1:197220200-197221800 | Weak transcription | H1 BMP4 Derived Trophoblast Cultured Cells | ES cell derived |
