Variant report
Variant | rs1963566 |
---|---|
Chromosome Location | chr4:56461000-56461001 |
allele | A/G |
Outlinks | Ensembl   UCSC |
- TF binding region (count:10)
- CpG islands (count:0)
- Chromatin interactive region (count:4)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:10 , 50 per page) page:
1
No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
---|---|---|---|---|---|---|
1 | JUND | chr4:56460947-56461044 | HepG2 | liver: | n/a | chr4:56461000-56461011 |
2 | POLR2A | chr4:56459602-56461000 | K562 | blood: | n/a | n/a |
3 | POLR2A | chr4:56460274-56461020 | K562 | blood: | n/a | n/a |
4 | POLR2A | chr4:56457051-56461679 | K562 | blood: | n/a | n/a |
5 | POLR2A | chr4:56460211-56461092 | K562 | blood: | n/a | n/a |
6 | TCF7L2 | chr4:56460916-56461005 | Hela-S3 | cervix: | n/a | n/a |
7 | JUND | chr4:56460902-56461073 | K562 | blood: | n/a | chr4:56461000-56461011 |
8 | POLR2A | chr4:56460871-56461224 | K562 | blood: | n/a | n/a |
9 | POLR2A | chr4:56458085-56461042 | K562 | blood: | n/a | n/a |
10 | POLR2A | chr4:56458216-56461090 | K562 | blood: | n/a | n/a |
No data |
(count:4 , 50 per page) page:
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No. | Distal block | Cell Line | Cell type | Cell Stage |
---|---|---|---|---|
1 | chr4:56460832..56462856-chr4:56478236..56479860,2 | MCF-7 | breast: | |
2 | chr4:56459697..56462267-chr4:56481406..56483258,2 | K562 | blood: | |
3 | chr4:56459163..56461447-chr4:56461922..56464276,2 | K562 | blood: | |
4 | chr4:56459983..56461740-chr4:56464229..56467052,3 | K562 | blood: |
No data |
No data |
No data |
Variant related genes | Relation type |
---|---|
PDCL2 | TF binding region |
rs_ID | r2[population] |
---|---|
rs10018565 | 0.81[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs10022874 | 0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs1027109 | 0.81[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs10866426 | 0.90[EUR][1000 genomes] |
rs13139886 | 0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs1387198 | 0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs1471981 | 0.90[EUR][1000 genomes] |
rs1552524 | 0.81[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs1906674 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs1906678 | 0.81[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs2101473 | 0.81[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs2101474 | 0.81[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs2412667 | 0.81[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs4865019 | 0.81[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs59494560 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs61541312 | 0.90[EUR][1000 genomes] |
rs6554294 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs6554295 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs6554296 | 0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes] |
rs6843720 | 0.81[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs7657199 | 0.81[AFR][1000 genomes];0.90[EUR][1000 genomes] |
rs7659330 | 0.81[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs7662646 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs7681959 | 0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs901946 | 0.81[AFR][1000 genomes] |

No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | esv3328582 | chr4:56164136-56486156 | Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 30 gene(s) | inside rSNPs | diseases |
2 | esv2755990 | chr4:56317136-57143037 | Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 40 gene(s) | inside rSNPs | diseases |
3 | nsv10496 | chr4:56336946-56841137 | Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 35 gene(s) | inside rSNPs | diseases |
4 | nsv998179 | chr4:56425126-56694339 | Flanking Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
5 | nsv932636 | chr4:56438618-56667329 | Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
No data |
No. | Chromosome Location | Chromatin state | Cell line | Tissue |
---|---|---|---|---|
1 | chr4:56441200-56464400 | Weak transcription | K562 | blood |
2 | chr4:56458600-56463800 | Weak transcription | H9 Derived Neuron Cultured Cells | ES cell derived |
3 | chr4:56460000-56464800 | Strong transcription | H9 Derived Neuronal Progenitor Cultured Cells | ES cell derived |