Variant report
| Variant | rs11879631 |
|---|---|
| Chromosome Location | chr19:42347003-42347004 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:1)
- CpG islands (count:0)
- Chromatin interactive region (count:5)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:1 , 50 per page) page:
1
| No data |
(count:5 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr19:42340672..42344473-chr19:42346449..42349067,4 | K562 | blood: | |
| 2 | chr19:42346423..42349202-chr19:42351468..42355829,7 | K562 | blood: | |
| 3 | chr19:42346105..42348473-chr19:42349189..42351547,2 | MCF-7 | breast: | |
| 4 | chr19:42346706..42349091-chr19:42352503..42356782,5 | K562 | blood: | |
| 5 | chr19:42339358..42341430-chr19:42344625..42347180,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| LYPD4 | TF binding region |
| DMRTC2 | TF binding region |
| ENSG00000142025 | Chromatin interaction |
| ENSG00000267839 | Chromatin interaction |
| ENSG00000183103 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:15)
| rs_ID | r2[population] |
|---|---|
| rs11083640 | 0.80[YRI][hapmap];1.00[AMR][1000 genomes] |
| rs11878330 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs11878687 | 1.00[EUR][1000 genomes] |
| rs11879132 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs11879519 | 1.00[EUR][1000 genomes] |
| rs11880116 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs11880522 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs11880579 | 1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs11881323 | 0.80[YRI][hapmap] |
| rs11881984 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs12327868 | 0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs61761235 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs73932094 | 1.00[EUR][1000 genomes] |
| rs8103772 | 1.00[EUR][1000 genomes] |
| rs8112569 | 1.00[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 | nsv522854 | chr19:42120283-42931004 | Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 104 gene(s) | inside rSNPs | diseases |
| 2 | nsv1061878 | chr19:42325490-42416056 | Strong transcription Flanking Active TSS Weak transcription Genic enhancers Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 31 gene(s) | inside rSNPs | diseases |
| 3 | nsv911776 | chr19:42343526-42416056 | Weak transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 29 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr19:42346000-42347200 | Enhancers | K562 | blood |
| 2 | chr19:42347000-42347800 | Enhancers | HepG2 | liver |
