Variant report

Variant	rs2059540
Chromosome Location	chr11:108760354-108760355
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:108754142..108756715-chr11:108759942..108762833,2	K562	blood:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1035724	0.94[EUR][1000 genomes]
rs10502105	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs10890907	0.88[EUR][1000 genomes]
rs11212751	0.80[ASN][1000 genomes]
rs11212822	0.90[EUR][1000 genomes]
rs12794068	0.95[EUR][1000 genomes]
rs2162158	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2357324	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs2466927	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2466928	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2466939	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2466940	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2514118	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs2514120	0.95[EUR][1000 genomes]
rs2553748	0.94[EUR][1000 genomes]
rs2553755	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2553762	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2553765	1.00[CEU][hapmap]
rs2553766	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs2553767	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2615729	0.82[CEU][hapmap]
rs2615732	0.89[CHB][hapmap]
rs2615733	0.94[ASN][1000 genomes]
rs2615757	1.00[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs2726893	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs2726894	0.92[CEU][hapmap];0.94[EUR][1000 genomes]
rs2726895	0.94[EUR][1000 genomes]
rs2726899	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2726901	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs2726902	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2726903	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2726904	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2726912	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2726923	1.00[CEU][hapmap];0.94[CHB][hapmap];0.83[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35273823	0.87[EUR][1000 genomes]
rs4027412	0.92[CEU][hapmap];0.89[EUR][1000 genomes]
rs4754344	0.84[ASN][1000 genomes]
rs4754361	0.94[EUR][1000 genomes]
rs4754362	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs919038	1.00[CEU][hapmap];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1052254	chr11:108122683-108845008	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv541164	chr11:108122683-108845008	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv898386	chr11:108409442-108831875	Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv898389	chr11:108724639-108891986	Enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:108726200-108768400	Weak transcription	Primary B cells from peripheral blood	blood
2	chr11:108728400-108810600	Weak transcription	Left Ventricle	heart
3	chr11:108753200-108761000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr11:108755200-108761400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr11:108756000-108761000	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr11:108756000-108761000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr11:108757400-108761600	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr11:108757600-108760600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr11:108757600-108760800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr11:108757600-108761200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr11:108757800-108760800	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr11:108757800-108761000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr11:108757800-108766400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr11:108757800-108766800	Weak transcription	Stomach Mucosa	stomach
15	chr11:108758000-108760400	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr11:108758400-108760400	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr11:108758400-108761000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr11:108758400-108766800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr11:108758600-108760400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr11:108758600-108764600	Weak transcription	A549	lung
21	chr11:108758600-108766400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr11:108758800-108761000	Weak transcription	Fetal Thymus	thymus
23	chr11:108759200-108761400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr11:108759400-108760400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr11:108759400-108766000	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr11:108759600-108761000	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr11:108759600-108766400	Weak transcription	Osteobl	bone
28	chr11:108759800-108760800	Weak transcription	Primary T cells from cord blood	blood
29	chr11:108760200-108760600	Enhancers	Primary T killer naive cells fromperipheralblood	blood

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