Variant report

Variant	rs28648375
Chromosome Location	chr4:68777000-68777001
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10016079	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10030290	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10518046	0.88[EUR][1000 genomes]
rs11929790	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11936544	0.88[EUR][1000 genomes]
rs11936547	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11945715	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13435091	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13435462	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13435828	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28434494	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28541914	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28670412	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28683051	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28722166	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28736832	0.88[EUR][1000 genomes]
rs28816094	0.88[EUR][1000 genomes]
rs28876815	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28896234	0.88[EUR][1000 genomes]
rs58285634	0.85[EUR][1000 genomes]
rs73823321	0.88[EUR][1000 genomes]
rs7670723	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9998258	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879214	chr4:68389841-68789778	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv829960	chr4:68649237-68809629	Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Weak transcription Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1007376	chr4:68693483-69008202	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	esv1811886	chr4:68725776-68780041	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv879219	chr4:68743032-69028913	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
6	esv1812791	chr4:68763239-69017739	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
7	esv1810203	chr4:68763794-68998153	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
8	esv1812515	chr4:68763794-68998153	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 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	chr4:68773800-68779000	Weak transcription	Esophagus	oesophagus
2	chr4:68776800-68777000	Active TSS	Duodenum Mucosa	Duodenum
3	chr4:68776800-68777200	Enhancers	Stomach Mucosa	stomach
4	chr4:68776800-68778000	Weak transcription	Fetal Intestine Small	intestine
5	chr4:68777000-68777200	Flanking Active TSS	Duodenum Mucosa	Duodenum
6	chr4:68777000-68778000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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