Variant report

Variant	rs6822933
Chromosome Location	chr4:54059445-54059446
allele	A/G
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:32)

rs_ID	r²[population]
rs10027975	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11133248	0.96[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11721940	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs11724781	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs11942132	0.83[EUR][1000 genomes]
rs12715997	0.80[EUR][1000 genomes]
rs13117212	0.81[YRI][hapmap]
rs13146499	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17654608	0.91[CHB][hapmap];0.90[JPT][hapmap];0.81[YRI][hapmap]
rs2412401	0.92[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.81[YRI][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2412403	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs2412404	0.89[CEU][hapmap];0.81[JPT][hapmap];0.82[EUR][1000 genomes]
rs28640919	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs34690074	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4394057	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4557334	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4571396	1.00[YRI][hapmap]
rs4588514	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs4864737	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6554071	0.89[CEU][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs6554073	0.83[EUR][1000 genomes]
rs6554074	0.83[EUR][1000 genomes]
rs6554075	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6554078	0.83[EUR][1000 genomes]
rs6554098	0.86[CHB][hapmap];0.84[JPT][hapmap]
rs6820250	0.84[AMR][1000 genomes]
rs6821328	0.86[CHB][hapmap];0.84[JPT][hapmap]
rs6827392	1.00[CEU][hapmap];0.91[CHB][hapmap];0.85[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs751266	0.86[CHB][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes]
rs7672997	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];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7673864	0.82[EUR][1000 genomes]
rs7687452	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1004889	chr4:53436500-54106281	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv537094	chr4:53436500-54106281	Bivalent/Poised TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54043200-54077000	Weak transcription	Primary T cells from cord blood	blood
2	chr4:54048000-54086000	Weak transcription	GM12878-XiMat	blood
3	chr4:54050200-54061800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr4:54050400-54062400	Weak transcription	Primary hematopoietic stem cells	blood
5	chr4:54051000-54073000	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr4:54052400-54065800	Weak transcription	Aorta	Aorta
7	chr4:54053000-54093000	Weak transcription	Primary B cells from cord blood	blood
8	chr4:54054600-54072200	Weak transcription	K562	blood
9	chr4:54055800-54062200	Weak transcription	NHLF	lung
10	chr4:54056600-54061600	Weak transcription	NHDF-Ad	bronchial
11	chr4:54056600-54062400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr4:54056600-54076400	Weak transcription	Ovary	ovary
13	chr4:54058200-54059800	Enhancers	Osteobl	bone
14	chr4:54058200-54079800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr4:54058400-54062200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr4:54059000-54060000	Weak transcription	Small Intestine	intestine
17	chr4:54059000-54060200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr4:54059200-54059600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr4:54059200-54059800	Enhancers	Muscle Satellite Cultured Cells	--
20	chr4:54059200-54059800	Enhancers	NH-A	brain
21	chr4:54059400-54059600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr4:54059400-54059600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr4:54059400-54059800	Enhancers	Fetal Kidney	kidney

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