Variant report
| Variant | rs17021677 |
|---|---|
| Chromosome Location | chr3:28727597-28727598 |
| allele | A/T |
| 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:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr3:28719789..28721627-chr3:28725171..28727853,2 | K562 | blood: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:24)
| rs_ID | r2[population] |
|---|---|
| rs11717111 | 0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs11717395 | 0.88[ASN][1000 genomes] |
| rs11921695 | 0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes] |
| rs1350867 | 0.85[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs1461822 | 0.86[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs1461823 | 0.92[ASN][1000 genomes] |
| rs17021644 | 0.93[EUR][1000 genomes];0.86[ASN][1000 genomes] |
| rs17021763 | 0.85[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs17021787 | 0.88[ASN][1000 genomes] |
| rs17021793 | 0.88[ASN][1000 genomes] |
| rs2371341 | 0.85[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs34754155 | 0.96[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs4298010 | 0.83[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs4311180 | 0.85[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs4482629 | 0.86[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs57372256 | 0.85[ASN][1000 genomes] |
| rs724188 | 1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs73050672 | 0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs73052505 | 0.86[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs7426401 | 0.88[ASN][1000 genomes] |
| rs922288 | 0.88[ASN][1000 genomes] |
| rs9310869 | 0.95[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs9855864 | 0.85[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs9968141 | 0.90[EUR][1000 genomes];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 | esv3328565 | chr3:27991169-28915035 | Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 28 gene(s) | inside rSNPs | diseases |
| 2 | nsv1015015 | chr3:28461972-28728494 | Bivalent/Poised TSS Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 3 | nsv916364 | chr3:28468275-29146280 | Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
| 4 | nsv1001920 | chr3:28711075-28788920 | Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer | Chromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | n/a |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:28726200-28728400 | Enhancers | Cortex derived primary cultured neurospheres | brain |
| 2 | chr3:28727200-28739600 | Weak transcription | HSMMtube | muscle |
