Variant report

Variant	rs60834002
Chromosome Location	chr3:90059398-90059399
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 123 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:99)

rs_ID	r²[population]
rs11128081	1.00[EUR][1000 genomes]
rs11917293	1.00[EUR][1000 genomes]
rs11918512	1.00[EUR][1000 genomes]
rs11920640	1.00[EUR][1000 genomes]
rs11924267	1.00[EUR][1000 genomes]
rs11926877	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11927254	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12106840	1.00[EUR][1000 genomes]
rs12107978	1.00[EUR][1000 genomes]
rs12107987	1.00[EUR][1000 genomes]
rs1402829	1.00[EUR][1000 genomes]
rs1402830	1.00[EUR][1000 genomes]
rs1402831	1.00[EUR][1000 genomes]
rs1402832	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs1521801	1.00[EUR][1000 genomes]
rs1521805	1.00[EUR][1000 genomes]
rs1915788	1.00[EUR][1000 genomes]
rs1996783	1.00[EUR][1000 genomes]
rs1996784	1.00[EUR][1000 genomes]
rs2204079	1.00[EUR][1000 genomes]
rs4459919	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs55719953	1.00[EUR][1000 genomes]
rs55726199	1.00[EUR][1000 genomes]
rs55958954	0.83[AMR][1000 genomes]
rs56257056	1.00[EUR][1000 genomes]
rs57237979	1.00[EUR][1000 genomes]
rs57268246	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57403980	0.83[AMR][1000 genomes]
rs57530512	1.00[EUR][1000 genomes]
rs57742239	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57945456	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57953580	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58442773	1.00[EUR][1000 genomes]
rs58444511	1.00[EUR][1000 genomes]
rs58944054	1.00[EUR][1000 genomes]
rs58977999	1.00[EUR][1000 genomes]
rs59297554	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59437743	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59827615	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60383922	0.86[AFR][1000 genomes]
rs61037499	1.00[EUR][1000 genomes]
rs61580714	0.94[AFR][1000 genomes]
rs6551449	1.00[EUR][1000 genomes]
rs6551452	0.89[AFR][1000 genomes]
rs6770945	1.00[EUR][1000 genomes]
rs6772724	1.00[EUR][1000 genomes]
rs6776405	0.83[AMR][1000 genomes]
rs6780268	1.00[EUR][1000 genomes]
rs6782153	1.00[EUR][1000 genomes]
rs6789090	0.83[AMR][1000 genomes]
rs6789123	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs6789628	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6789752	1.00[EUR][1000 genomes]
rs6793888	1.00[EUR][1000 genomes]
rs6798554	1.00[EUR][1000 genomes]
rs6800705	1.00[EUR][1000 genomes]
rs6804358	1.00[EUR][1000 genomes]
rs72921826	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72921827	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72921828	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72921847	1.00[EUR][1000 genomes]
rs72921850	1.00[EUR][1000 genomes]
rs72921853	1.00[EUR][1000 genomes]
rs72921855	1.00[EUR][1000 genomes]
rs72921864	1.00[EUR][1000 genomes]
rs72921866	1.00[EUR][1000 genomes]
rs72921873	1.00[EUR][1000 genomes]
rs72921876	1.00[EUR][1000 genomes]
rs72923735	1.00[EUR][1000 genomes]
rs72923736	1.00[EUR][1000 genomes]
rs72923737	1.00[EUR][1000 genomes]
rs72923739	1.00[EUR][1000 genomes]
rs72923741	1.00[EUR][1000 genomes]
rs72923755	1.00[EUR][1000 genomes]
rs72923757	1.00[EUR][1000 genomes]
rs72923762	1.00[EUR][1000 genomes]
rs72923764	1.00[EUR][1000 genomes]
rs72923765	1.00[EUR][1000 genomes]
rs72923767	1.00[EUR][1000 genomes]
rs72923770	1.00[EUR][1000 genomes]
rs72923771	1.00[EUR][1000 genomes]
rs72923776	1.00[EUR][1000 genomes]
rs72923777	1.00[EUR][1000 genomes]
rs72923779	1.00[EUR][1000 genomes]
rs72923781	1.00[EUR][1000 genomes]
rs72923784	1.00[EUR][1000 genomes]
rs72923786	1.00[EUR][1000 genomes]
rs72923794	1.00[EUR][1000 genomes]
rs72923797	0.86[AFR][1000 genomes]
rs72925705	1.00[EUR][1000 genomes]
rs72925712	1.00[EUR][1000 genomes]
rs73846008	1.00[EUR][1000 genomes]
rs73849912	1.00[EUR][1000 genomes]
rs7610765	1.00[EUR][1000 genomes]
rs7619437	1.00[EUR][1000 genomes]
rs7627792	1.00[EUR][1000 genomes]
rs7637541	1.00[EUR][1000 genomes]
rs7648089	1.00[EUR][1000 genomes]
rs7648900	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:24 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1008018	chr3:89382031-90254063	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats 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	5 gene(s)	inside rSNPs	diseases
2	nsv536639	chr3:89382031-90254063	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1010932	chr3:89424428-90192503	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1010021	chr3:89521983-90141988	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv530024	chr3:89548440-90304841	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv869889	chr3:89653238-90087372	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1008130	chr3:89837442-90192503	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv1010796	chr3:89870548-90192503	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv1013598	chr3:89879377-90192503	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv536642	chr3:89879377-90192503	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv590966	chr3:89904882-90199759	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv1007523	chr3:89951855-90144385	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv1011581	chr3:89951855-90144746	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv997583	chr3:89951855-90154534	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
15	nsv1006665	chr3:89958844-90162193	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
16	nsv998541	chr3:89961515-90153365	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
17	nsv536643	chr3:89961515-90153365	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
18	nsv590967	chr3:89979895-90138312	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
19	nsv590968	chr3:89979895-90199759	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
20	nsv460761	chr3:89987871-90138312	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
21	nsv590969	chr3:89987871-90138312	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
22	nsv590970	chr3:89987871-90441306	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
23	esv3342086	chr3:90031311-90059516	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	n/a	n/a	inside rSNPs	diseases
24	nsv1010292	chr3:90057464-90192503	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:90057200-90059400	Weak transcription	Aorta	Aorta
2	chr3:90057400-90059600	Weak transcription	Stomach Smooth Muscle	stomach
3	chr3:90057400-90064400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr3:90057600-90060200	Weak transcription	NHDF-Ad	bronchial
5	chr3:90057800-90059400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr3:90057800-90059600	Weak transcription	Ovary	ovary
7	chr3:90058000-90059400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr3:90058000-90059600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr3:90058000-90060200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr3:90058000-90064600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr3:90058400-90059400	Enhancers	Muscle Satellite Cultured Cells	--
12	chr3:90058400-90059400	Weak transcription	Fetal Lung	lung
13	chr3:90058600-90061000	Enhancers	Colon Smooth Muscle	Colon
14	chr3:90058600-90061600	Enhancers	Fetal Heart	heart
15	chr3:90058800-90060400	Enhancers	Rectal Smooth Muscle	rectum
16	chr3:90058800-90060600	Enhancers	Placenta Amnion	Placenta Amnion
17	chr3:90058800-90060600	Enhancers	NH-A	brain
18	chr3:90058800-90060800	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr3:90058800-90060800	Enhancers	Osteobl	bone
20	chr3:90058800-90061000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr3:90059000-90059800	Enhancers	Hela-S3	cervix
22	chr3:90059000-90060200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr3:90059000-90060800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr3:90059000-90061400	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr3:90059000-90061600	Enhancers	HSMMtube	muscle
26	chr3:90059200-90059400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
27	chr3:90059200-90059400	Enhancers	HSMM	muscle
28	chr3:90059200-90059600	Active TSS	HMEC	breast
29	chr3:90059200-90060200	Enhancers	HUES64 Cell Line	embryonic stem cell
30	chr3:90059200-90060200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr3:90059200-90060200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr3:90059200-90060400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr3:90059200-90060600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr3:90059200-90061000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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