Variant report

Variant	rs11006920
Chromosome Location	chr10:28498435-28498436
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10826407	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10826408	0.80[CHB][hapmap];0.85[JPT][hapmap]
rs11006849	0.80[CHB][hapmap]
rs11006853	0.80[CHB][hapmap]
rs11006896	0.90[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11006897	0.86[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs11006902	0.91[CEU][hapmap];0.85[CHB][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11006903	0.81[CEU][hapmap];0.85[CHB][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12251924	0.91[CEU][hapmap];0.86[CHB][hapmap];0.81[JPT][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12254584	0.90[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12259869	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12261363	1.00[CEU][hapmap];0.84[CHB][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12264184	0.91[CEU][hapmap];0.86[CHB][hapmap];0.81[JPT][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12268470	0.81[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12573451	0.83[JPT][hapmap]
rs12766231	0.91[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1937810	0.84[EUR][1000 genomes]
rs2763321	0.81[CHB][hapmap];0.85[JPT][hapmap]
rs2985523	0.80[JPT][hapmap]
rs4408232	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4747615	0.81[CEU][hapmap];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4749310	0.91[CEU][hapmap];0.80[CHB][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4749311	0.80[CHB][hapmap];0.81[JPT][hapmap]
rs4749313	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs58368296	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7081378	0.90[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7085245	0.90[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7097357	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7101051	0.90[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9663596	0.91[CEU][hapmap];0.81[CHB][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1042524	chr10:28290149-28506812	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv525448	chr10:28337570-28563732	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv831817	chr10:28369836-28539930	Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv1041555	chr10:28419399-29304934	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
6	nsv1037863	chr10:28419399-29378871	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
7	nsv540521	chr10:28419399-29378871	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
8	nsv6188	chr10:28489076-28514068	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28467600-28525600	Weak transcription	Aorta	Aorta
2	chr10:28485600-28504400	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr10:28487600-28529000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr10:28488600-28500200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr10:28489800-28504400	Weak transcription	Esophagus	oesophagus
6	chr10:28491200-28523200	Weak transcription	Primary neutrophils fromperipheralblood	blood
7	chr10:28492000-28501000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr10:28492200-28504400	Weak transcription	Psoas Muscle	Psoas
9	chr10:28492200-28506800	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr10:28492600-28506400	Weak transcription	Colon Smooth Muscle	Colon
11	chr10:28492600-28507200	Weak transcription	Rectal Smooth Muscle	rectum
12	chr10:28493200-28499200	Weak transcription	Fetal Intestine Large	intestine
13	chr10:28495800-28500000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr10:28497000-28499000	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr10:28497000-28499200	Strong transcription	Primary T cells from cord blood	blood
16	chr10:28497400-28503800	Weak transcription	Primary hematopoietic stem cells	blood
17	chr10:28497400-28506600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr10:28497800-28499000	Strong transcription	Primary T helper cells fromperipheralblood	blood
19	chr10:28497800-28499000	Enhancers	HepG2	liver
20	chr10:28497800-28501400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr10:28497800-28503400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr10:28498000-28498800	Weak transcription	Ovary	ovary
23	chr10:28498000-28500000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr10:28498000-28501000	Weak transcription	Stomach Smooth Muscle	stomach
25	chr10:28498000-28501400	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr10:28498000-28505600	Weak transcription	HSMMtube	muscle
27	chr10:28498000-28506600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr10:28498200-28499200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr10:28498200-28504400	Weak transcription	Lung	lung
30	chr10:28498200-28506600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
31	chr10:28498200-28531200	Weak transcription	Primary B cells from cord blood	blood
32	chr10:28498200-28537000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
33	chr10:28498400-28498800	Weak transcription	Fetal Stomach	stomach
34	chr10:28498400-28501200	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr10:28498400-28501600	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr10:28498400-28503200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr10:28498400-28504000	Weak transcription	Fetal Intestine Small	intestine
38	chr10:28498400-28504400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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