Variant report

Variant	rs2098574
Chromosome Location	chr12:21989262-21989263
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11046212	0.88[JPT][hapmap]
rs11046215	0.82[JPT][hapmap]
rs12825295	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1283816	0.85[TSI][hapmap];0.81[AMR][1000 genomes]
rs1283817	0.85[TSI][hapmap];0.83[AMR][1000 genomes]
rs1299731	0.86[AMR][1000 genomes]
rs1643235	0.94[CHB][hapmap];0.86[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.83[TSI][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1967534	0.86[AMR][1000 genomes]
rs2112080	0.96[CEU][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.89[MEX][hapmap];0.98[TSI][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2161063	0.83[CHB][hapmap];0.84[CHD][hapmap];0.88[JPT][hapmap]
rs2307024	0.83[JPT][hapmap];0.81[MEX][hapmap];0.82[AMR][1000 genomes]
rs3782667	0.94[CHB][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4148673	0.83[CHB][hapmap];0.83[JPT][hapmap];0.82[TSI][hapmap]
rs4148674	0.89[CHB][hapmap];0.89[CHD][hapmap];0.88[JPT][hapmap];0.85[TSI][hapmap];0.84[ASN][1000 genomes]
rs704175	0.80[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs704176	0.86[AMR][1000 genomes]
rs704185	0.88[JPT][hapmap]
rs704187	0.83[CHB][hapmap];0.84[CHD][hapmap];0.94[JPT][hapmap]
rs704189	0.83[CHB][hapmap];0.84[CHD][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs829068	0.86[AMR][1000 genomes]
rs829069	0.86[AMR][1000 genomes]
rs861202	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs864360	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]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv557741	chr12:21578559-22169854	Strong transcription Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv1051073	chr12:21910875-22271209	Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv470275	chr12:21938544-22126314	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:21958400-22003000	Weak transcription	Psoas Muscle	Psoas
2	chr12:21973800-21994800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr12:21973800-22025400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr12:21980600-22002800	Weak transcription	Fetal Heart	heart
5	chr12:21981800-21991000	Weak transcription	Fetal Muscle Trunk	muscle
6	chr12:21982000-21989400	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr12:21983600-22002800	Strong transcription	Liver	Liver
8	chr12:21983800-22002000	Strong transcription	Skeletal Muscle Female	skeletal muscle
9	chr12:21983800-22003000	Weak transcription	Pancreas	Pancrea
10	chr12:21984800-21991400	Weak transcription	Fetal Muscle Leg	muscle
11	chr12:21984800-21994200	Weak transcription	Fetal Kidney	kidney
12	chr12:21984800-21995000	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr12:21985000-22003000	Weak transcription	Right Ventricle	heart
14	chr12:21985400-21993400	Weak transcription	Fetal Stomach	stomach
15	chr12:21985400-21995200	Weak transcription	Ovary	ovary
16	chr12:21985400-21996600	Weak transcription	NHDF-Ad	bronchial
17	chr12:21985400-22005000	Weak transcription	NHLF	lung
18	chr12:21985600-21994800	Weak transcription	Adipose Nuclei	Adipose
19	chr12:21985600-22002800	Weak transcription	Fetal Lung	lung
20	chr12:21985800-21989400	Weak transcription	Colon Smooth Muscle	Colon
21	chr12:21985800-21994800	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr12:21985800-22004800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr12:21987200-21991600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr12:21989000-21994800	Weak transcription	Stomach Smooth Muscle	stomach
25	chr12:21989200-21992200	Strong transcription	Left Ventricle	heart

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