Variant report

Variant	rs5998881
Chromosome Location	chr22:33730575-33730576
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs11913717	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11913820	1.00[CEU][hapmap]
rs12158409	1.00[CEU][hapmap]
rs12159214	1.00[CEU][hapmap]
rs16992166	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[TSI][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16992174	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16992228	1.00[CEU][hapmap]
rs2157198	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2157199	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2157200	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2283888	0.85[LWK][hapmap];0.86[YRI][hapmap]
rs2283889	0.85[LWK][hapmap];0.86[YRI][hapmap]
rs2283890	0.82[AFR][1000 genomes]
rs2283892	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2283893	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs2413177	1.00[CEU][hapmap]
rs28645138	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4322933	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4560231	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4613386	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57917413	1.00[ASN][1000 genomes]
rs58959950	1.00[ASN][1000 genomes]
rs5994713	1.00[CEU][hapmap]
rs5994714	1.00[CEU][hapmap]
rs5998836	1.00[CEU][hapmap]
rs5998840	1.00[CEU][hapmap]
rs5998841	1.00[CEU][hapmap]
rs5998848	1.00[CEU][hapmap]
rs5998849	1.00[CEU][hapmap]
rs5998853	1.00[CEU][hapmap]
rs5998854	1.00[CEU][hapmap]
rs5998860	1.00[JPT][hapmap]
rs5998862	1.00[JPT][hapmap]
rs5998877	1.00[ASN][1000 genomes]
rs5998878	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5998879	0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs5998882	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5998883	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5998884	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5998886	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5998887	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[TSI][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5998888	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs5998889	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60122905	1.00[ASN][1000 genomes]
rs61242860	1.00[ASN][1000 genomes]
rs61531606	1.00[ASN][1000 genomes]
rs7286990	1.00[CEU][hapmap]
rs73401440	1.00[ASN][1000 genomes]
rs73401467	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73401481	1.00[ASN][1000 genomes]
rs750515	1.00[CEU][hapmap]
rs8135160	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8135185	0.97[ASN][1000 genomes]
rs8135526	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8135785	1.00[CEU][hapmap]
rs8135835	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8136395	1.00[CEU][hapmap]
rs8137471	1.00[JPT][hapmap]
rs8139132	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];1.00[ASN][1000 genomes]
rs8139519	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs8139984	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8140876	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8142882	1.00[CEU][hapmap]
rs9621675	1.00[JPT][hapmap]
rs9680610	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9680635	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[TSI][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9680641	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531587	chr22:33346710-33809338	Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
2	nsv948523	chr22:33414164-34098417	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
3	nsv1067068	chr22:33452180-33851033	Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	32 gene(s)	inside rSNPs	diseases
4	nsv933455	chr22:33532697-33915429	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1064192	chr22:33615699-33741836	Strong transcription Weak transcription Enhancers Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1059927	chr22:33615699-33904339	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
7	nsv544682	chr22:33615699-33904339	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
8	nsv1060316	chr22:33644676-33737725	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1056097	chr22:33650328-33733456	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv1061485	chr22:33670971-33885169	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
11	nsv934109	chr22:33722066-34339500	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:33673400-33735000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr22:33676600-33745000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr22:33679400-33733200	Weak transcription	Fetal Brain Female	brain
4	chr22:33679400-33743800	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr22:33696200-33748000	Weak transcription	Fetal Lung	lung
6	chr22:33698600-33736400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr22:33699400-33731800	Weak transcription	Brain Cingulate Gyrus	brain
8	chr22:33710400-33733400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr22:33710400-33733400	Weak transcription	Spleen	Spleen
10	chr22:33710600-33740000	Weak transcription	Rectal Smooth Muscle	rectum
11	chr22:33711200-33735800	Weak transcription	Colon Smooth Muscle	Colon
12	chr22:33711400-33733000	Weak transcription	Brain Anterior Caudate	brain
13	chr22:33711600-33731800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr22:33712200-33730600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr22:33712200-33731600	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr22:33712200-33732600	Weak transcription	Brain Hippocampus Middle	brain
17	chr22:33712200-33733200	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr22:33712200-33735200	Weak transcription	Brain Angular Gyrus	brain
19	chr22:33712400-33730600	Weak transcription	Duodenum Mucosa	Duodenum
20	chr22:33712400-33730600	Weak transcription	Gastric	stomach
21	chr22:33712400-33733200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr22:33712400-33733200	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr22:33712400-33733200	Weak transcription	Lung	lung
24	chr22:33712400-33735000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr22:33712600-33733400	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr22:33716200-33735600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
27	chr22:33718800-33731800	Weak transcription	Adipose Nuclei	Adipose
28	chr22:33721800-33730600	Weak transcription	Fetal Kidney	kidney
29	chr22:33723200-33732600	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr22:33723200-33739600	Weak transcription	Fetal Muscle Trunk	muscle
31	chr22:33723400-33730600	Weak transcription	Fetal Stomach	stomach
32	chr22:33723400-33730600	Weak transcription	Stomach Smooth Muscle	stomach
33	chr22:33723400-33733200	Weak transcription	Pancreas	Pancrea
34	chr22:33723800-33751200	Weak transcription	Aorta	Aorta
35	chr22:33725200-33730600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr22:33725200-33731400	Weak transcription	Fetal Intestine Small	intestine
37	chr22:33725600-33730600	Weak transcription	Osteobl	bone
38	chr22:33725600-33749600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr22:33725800-33731400	Weak transcription	Fetal Intestine Large	intestine
40	chr22:33725800-33732000	Enhancers	Rectal Mucosa Donor 31	rectum
41	chr22:33725800-33733400	Weak transcription	Stomach Mucosa	stomach
42	chr22:33726000-33733600	Weak transcription	GM12878-XiMat	blood
43	chr22:33726200-33730600	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr22:33726800-33733200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr22:33726800-33735200	Weak transcription	Colonic Mucosa	Colon
46	chr22:33727000-33733200	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr22:33727000-33733400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr22:33727000-33735400	Weak transcription	HUES6 Cell Line	embryonic stem cell
49	chr22:33727200-33731000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr22:33727200-33732000	Weak transcription	HUES48 Cell Line	embryonic stem cell

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