Variant report

Variant	rs1490272
Chromosome Location	chr3:67345136-67345137
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOXA1	chr3:67344817-67345205	HepG2	liver:	n/a	n/a
2	EP300	chr3:67344741-67345138	HepG2	liver:	n/a	n/a
3	EP300	chr3:67344821-67345157	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
ENSG00000241884	TF binding region

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1027196	0.93[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11705924	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs11706477	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs11710648	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs11719613	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs1490264	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1490266	0.89[EUR][1000 genomes]
rs1490273	0.86[CEU][hapmap]
rs1552617	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs1552618	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs1552624	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1552630	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17806805	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs2363706	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3206427	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs3206428	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs4856845	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6548450	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6782456	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6787783	0.86[CEU][hapmap]
rs7433795	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7639918	0.85[EUR][1000 genomes]
rs7647117	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7648649	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7649144	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs902327	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9309753	0.93[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs971316	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs973817	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9831805	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9838079	0.92[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9843377	0.93[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9856163	0.93[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9860348	0.93[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9863572	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007093	chr3:67113534-67602973	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:67340800-67347200	Enhancers	HepG2	liver
2	chr3:67343000-67352200	Weak transcription	Aorta	Aorta
3	chr3:67343600-67345600	Weak transcription	Brain Hippocampus Middle	brain
4	chr3:67343800-67346400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr3:67344800-67345200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr3:67344800-67345400	Enhancers	Pancreatic Islets	Pancreatic Islet

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