Variant report

Variant	rs28687202
Chromosome Location	chr4:148877500-148877501
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10016632	0.81[AFR][1000 genomes]
rs10021664	0.81[AFR][1000 genomes]
rs10025355	1.00[AFR][1000 genomes]
rs10029241	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10029666	1.00[EUR][1000 genomes]
rs10084795	0.81[AFR][1000 genomes]
rs17024101	1.00[EUR][1000 genomes]
rs17024109	1.00[EUR][1000 genomes]
rs28375864	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28522552	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28529145	1.00[EUR][1000 genomes]
rs28592193	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28594565	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28633738	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28637907	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28681245	0.81[AFR][1000 genomes]
rs28716209	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36114707	1.00[EUR][1000 genomes]
rs57726071	1.00[EUR][1000 genomes]
rs59333422	1.00[EUR][1000 genomes]
rs59532898	1.00[EUR][1000 genomes]
rs60042934	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61012783	1.00[EUR][1000 genomes]
rs61764246	1.00[EUR][1000 genomes]
rs72957750	1.00[EUR][1000 genomes]
rs73853989	1.00[EUR][1000 genomes]
rs9996205	0.83[AFR][1000 genomes];1.00[EUR][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	nsv498083	chr4:148519825-148917583	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
2	nsv880243	chr4:148735644-148879583	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv880244	chr4:148764252-148920089	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1029845	chr4:148766290-148916437	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv1030001	chr4:148773479-148916437	Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1017904	chr4:148814133-148975348	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1024596	chr4:148830472-148886915	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:148797400-148879600	Weak transcription	Gastric	stomach
2	chr4:148826600-148888200	Weak transcription	Fetal Thymus	thymus
3	chr4:148850200-148890800	Weak transcription	HUVEC	blood vessel
4	chr4:148855400-148884800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr4:148856400-148889000	Weak transcription	Placenta	Placenta
6	chr4:148859400-148898000	Weak transcription	Duodenum Mucosa	Duodenum
7	chr4:148859800-148878600	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr4:148860800-148879200	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr4:148861800-148878400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr4:148861800-148883000	Weak transcription	Lung	lung
11	chr4:148861800-148883000	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr4:148861800-148884800	Weak transcription	Esophagus	oesophagus
13	chr4:148861800-148885400	Weak transcription	Pancreas	Pancrea
14	chr4:148861800-148890800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr4:148862000-148878400	Weak transcription	Fetal Heart	heart
16	chr4:148862000-148879200	Weak transcription	Psoas Muscle	Psoas
17	chr4:148862800-148887800	Weak transcription	Fetal Intestine Large	intestine
18	chr4:148864200-148887200	Weak transcription	NHLF	lung
19	chr4:148864400-148896800	Weak transcription	Osteobl	bone
20	chr4:148864800-148891200	Weak transcription	Primary monocytes fromperipheralblood	blood
21	chr4:148865000-148879400	Weak transcription	Monocytes-CD14+_RO01746	blood
22	chr4:148865400-148879400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr4:148866400-148887400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr4:148866400-148889800	Weak transcription	Primary T cells fromperipheralblood	blood
25	chr4:148866400-148927400	Weak transcription	Thymus	Thymus
26	chr4:148866600-148882800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr4:148867200-148891200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr4:148867400-148882000	Weak transcription	HSMMtube	muscle
29	chr4:148868200-148878200	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr4:148868200-148902600	Weak transcription	NH-A	brain
31	chr4:148868400-148878000	Weak transcription	HMEC	breast
32	chr4:148869200-148883000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr4:148869200-148883000	Weak transcription	GM12878-XiMat	blood
34	chr4:148869400-148883200	Weak transcription	Right Ventricle	heart
35	chr4:148870000-148884800	Weak transcription	Fetal Intestine Small	intestine
36	chr4:148870800-148878200	Weak transcription	Left Ventricle	heart
37	chr4:148871000-148878200	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr4:148871000-148878200	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr4:148871800-148878200	Weak transcription	Aorta	Aorta
40	chr4:148872200-148879600	Weak transcription	Fetal Stomach	stomach
41	chr4:148872200-148883000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr4:148872400-148884400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr4:148872600-148879200	Weak transcription	NHDF-Ad	bronchial
44	chr4:148873000-148879200	Weak transcription	Fetal Muscle Leg	muscle
45	chr4:148873200-148878600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr4:148873400-148884800	Weak transcription	Fetal Muscle Trunk	muscle
47	chr4:148873600-148884800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr4:148873600-148885400	Weak transcription	Fetal Kidney	kidney
49	chr4:148874000-148885400	Weak transcription	Fetal Lung	lung
50	chr4:148876000-148878600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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