Variant report

Variant	rs11006939
Chromosome Location	chr10:28525523-28525524
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10763651	0.81[AMR][1000 genomes]
rs10826445	0.88[AMR][1000 genomes]
rs10826446	0.88[AMR][1000 genomes]
rs11006923	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11006927	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11006928	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11006933	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006937	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006938	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006947	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11006950	0.86[AMR][1000 genomes]
rs11006954	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11006958	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11006960	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11006964	0.87[EUR][1000 genomes]
rs11006989	0.86[AMR][1000 genomes]
rs11006990	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11006992	0.80[AMR][1000 genomes]
rs11006994	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11006995	0.86[AMR][1000 genomes]
rs11006997	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11006998	0.86[AMR][1000 genomes]
rs11006999	0.83[AMR][1000 genomes]
rs11007000	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12218294	0.83[AMR][1000 genomes]
rs12570440	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17831816	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2368306	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35016093	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3842931	0.86[AMR][1000 genomes]
rs3847387	0.80[AMR][1000 genomes]
rs4598572	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4604776	0.86[AMR][1000 genomes]
rs57441879	0.86[AMR][1000 genomes]
rs7901835	0.88[AMR][1000 genomes]
rs7902785	0.86[AMR][1000 genomes]
rs7903242	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7916067	0.86[AMR][1000 genomes]
rs7916711	0.88[AMR][1000 genomes]
rs7916740	0.88[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	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
3	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
4	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
5	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
6	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

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28467600-28525600	Weak transcription	Aorta	Aorta
2	chr10:28487600-28529000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr10:28498200-28531200	Weak transcription	Primary B cells from cord blood	blood
4	chr10:28498200-28537000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr10:28502000-28531600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr10:28507200-28528600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr10:28507400-28530600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr10:28507600-28531000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr10:28510800-28530400	Weak transcription	HSMMtube	muscle
10	chr10:28511000-28528800	Weak transcription	Fetal Heart	heart
11	chr10:28515600-28528000	Weak transcription	Gastric	stomach
12	chr10:28516600-28527400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr10:28516800-28530400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr10:28518400-28531000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr10:28519000-28552000	Weak transcription	Fetal Stomach	stomach
16	chr10:28519800-28528800	Weak transcription	Fetal Intestine Large	intestine
17	chr10:28520400-28525600	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr10:28521200-28527600	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr10:28521200-28538600	Weak transcription	Left Ventricle	heart
20	chr10:28521800-28529800	Weak transcription	Fetal Intestine Small	intestine
21	chr10:28521800-28544400	Weak transcription	Pancreas	Pancrea
22	chr10:28522000-28526800	Strong transcription	Primary T cells from cord blood	blood
23	chr10:28522000-28527400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr10:28522000-28531400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr10:28522200-28527200	Weak transcription	Ovary	ovary
26	chr10:28522400-28537000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr10:28523000-28526200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr10:28523000-28527400	Strong transcription	Primary monocytes fromperipheralblood	blood
29	chr10:28523200-28527400	Strong transcription	Primary neutrophils fromperipheralblood	blood
30	chr10:28523200-28527600	Strong transcription	Primary T helper cells PMA-I stimulated	--
31	chr10:28523400-28530400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr10:28523600-28531400	Weak transcription	Primary hematopoietic stem cells	blood
33	chr10:28523800-28529000	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr10:28524000-28527600	Strong transcription	Primary T helper cells fromperipheralblood	blood
35	chr10:28524000-28537000	Weak transcription	Skeletal Muscle Female	skeletal muscle
36	chr10:28524200-28528600	Weak transcription	HepG2	liver
37	chr10:28524200-28537000	Weak transcription	Esophagus	oesophagus
38	chr10:28524400-28530600	Weak transcription	Duodenum Mucosa	Duodenum
39	chr10:28524600-28527000	Weak transcription	Brain Anterior Caudate	brain
40	chr10:28524600-28527000	Weak transcription	Lung	lung
41	chr10:28524800-28536600	Weak transcription	HSMM	muscle
42	chr10:28525000-28527600	Strong transcription	Primary T cells fromperipheralblood	blood
43	chr10:28525000-28527600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr10:28525200-28526000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr10:28525200-28528000	Weak transcription	Spleen	Spleen
46	chr10:28525200-28530600	Weak transcription	Stomach Smooth Muscle	stomach
47	chr10:28525400-28526000	Active TSS	Pancreatic Islets	Pancreatic Islet
48	chr10:28525400-28527400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood

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