Variant report

Variant	rs28794638
Chromosome Location	chr4:79038862-79038863
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10008346	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10009577	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10014790	0.95[EUR][1000 genomes]
rs10020175	0.95[EUR][1000 genomes]
rs10026071	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10027675	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10029277	0.95[EUR][1000 genomes]
rs10032397	0.95[EUR][1000 genomes]
rs10222691	0.93[EUR][1000 genomes]
rs10222693	0.93[EUR][1000 genomes]
rs10440393	0.93[EUR][1000 genomes]
rs10518187	0.93[EUR][1000 genomes]
rs17002926	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17002927	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17002937	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17002965	0.95[EUR][1000 genomes]
rs17002971	0.95[EUR][1000 genomes]
rs17002972	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17002978	0.95[EUR][1000 genomes]
rs17453030	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28433896	0.93[EUR][1000 genomes]
rs28437781	0.93[EUR][1000 genomes]
rs28438642	0.95[EUR][1000 genomes]
rs28624340	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28627481	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28640590	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2867009	0.93[EUR][1000 genomes]
rs28673365	0.93[EUR][1000 genomes]
rs28728167	0.95[EUR][1000 genomes]
rs28825502	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56069998	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56209110	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56346346	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56404216	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72860675	0.95[EUR][1000 genomes]
rs72860700	0.93[EUR][1000 genomes]
rs9307350	0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534024	chr4:78785189-79437403	ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1009633	chr4:78887573-79652236	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	nsv520625	chr4:79002655-79071788	Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv525530	chr4:79024524-79266563	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:79022200-79039200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr4:79027000-79039400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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