Variant report
| Variant | rs17473900 |
|---|---|
| Chromosome Location | chr7:27361792-27361793 |
| allele | C/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 | 7:27238414-27242313..7:27354053-27367655 | Hela-S3 | cervix: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000243766 | Chromatin interaction |
| ENSG00000106031 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:13)
| rs_ID | r2[population] |
|---|---|
| rs11979443 | 1.00[ASN][1000 genomes] |
| rs12700800 | 0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs13230811 | 1.00[JPT][hapmap];0.81[YRI][hapmap];0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs17427686 | 1.00[JPT][hapmap] |
| rs17438465 | 1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[ASN][1000 genomes] |
| rs17438500 | 0.81[CEU][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap] |
| rs17471793 | 1.00[JPT][hapmap] |
| rs2107064 | 1.00[JPT][hapmap] |
| rs2391415 | 1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[ASN][1000 genomes] |
| rs28398483 | 1.00[JPT][hapmap];1.00[ASN][1000 genomes] |
| rs28398498 | 1.00[JPT][hapmap] |
| rs6953618 | 1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7777464 | 1.00[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
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| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1025538 | chr7:26482342-27376045 | Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 213 gene(s) | inside rSNPs | diseases |
| 2 | nsv538805 | chr7:26482342-27376045 | Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 213 gene(s) | inside rSNPs | diseases |
| 3 | nsv531024 | chr7:27194426-27461954 | Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 148 gene(s) | inside rSNPs | diseases |
| 4 | nsv887893 | chr7:27326739-27380936 | Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 5 | nsv1026851 | chr7:27344799-27370551 | Enhancers Weak transcription Flanking Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr7:27361200-27361800 | Enhancers | H1 BMP4 Derived Trophoblast Cultured Cells | ES cell derived |
