Variant report
Variant | rs6042542 |
---|---|
Chromosome Location | chr20:14113927-14113928 |
allele | A/C |
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 |
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No data |
rs_ID | r2[population] |
---|---|
rs6033866 | 1.00[AMR][1000 genomes] |
rs6033892 | 1.00[YRI][hapmap] |
rs6033894 | 1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap] |
rs6033895 | 1.00[YRI][hapmap];1.00[AMR][1000 genomes] |
rs6033899 | 1.00[AMR][1000 genomes] |
rs6042472 | 1.00[AMR][1000 genomes] |
rs6042477 | 1.00[AMR][1000 genomes] |
rs6042480 | 1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes] |
rs6042502 | 1.00[YRI][hapmap];1.00[AMR][1000 genomes] |
rs6042526 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
rs6042545 | 1.00[YRI][hapmap] |
rs6042551 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
rs6042557 | 1.00[ASW][hapmap];0.83[LWK][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
rs6042562 | 1.00[YRI][hapmap] |
rs6042579 | 1.00[AMR][1000 genomes] |
rs6042586 | 1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes] |
rs73255017 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page:
1
No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | nsv1066810 | chr20:13451869-14432454 | Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 17 gene(s) | inside rSNPs | diseases |
2 | nsv912689 | chr20:13570331-14155881 | Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 14 gene(s) | inside rSNPs | diseases |
3 | nsv531479 | chr20:13632491-14434432 | Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 16 gene(s) | inside rSNPs | diseases |
4 | nsv585438 | chr20:14054163-14171905 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats | TF binding regionChromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
5 | nsv1057486 | chr20:14077828-14469129 | ZNF genes & repeats Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
6 | nsv1058887 | chr20:14080114-14173534 | Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS | TF binding regionChromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
7 | nsv532514 | chr20:14097780-14288315 | Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
SNP | Gene | Cis/trans | Tissue | Source |
---|---|---|---|---|
rs6042542 | ULK2 | trans | lymphoblastoid | seeQTL |
rs6042542 | CYB5R2 | trans | lymphoblastoid | seeQTL |
rs6042542 | FOXG1 | trans | lymphoblastoid | seeQTL |
rs6042542 | SNRNP35 | trans | lymphoblastoid | seeQTL |
rs6042542 | CSTA | trans | lymphoblastoid | seeQTL |
rs6042542 | SCT | trans | lymphoblastoid | seeQTL |