Variant report

Variant	rs11005803
Chromosome Location	chr10:52225332-52225333
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10458673	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10508927	0.82[ASN][1000 genomes]
rs10508929	0.88[ASN][1000 genomes]
rs10740684	0.88[ASN][1000 genomes]
rs10763382	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10763426	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10763500	0.99[ASN][1000 genomes]
rs10825859	0.83[ASN][1000 genomes]
rs10825861	0.84[ASN][1000 genomes]
rs10825882	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10825904	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10825934	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10825978	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10825995	0.95[ASN][1000 genomes]
rs10825996	0.95[ASN][1000 genomes]
rs10826013	0.95[ASN][1000 genomes]
rs10826033	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10826034	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10826036	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11005356	0.82[ASN][1000 genomes]
rs11005418	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11005579	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11005614	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11005621	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11005761	0.97[ASN][1000 genomes]
rs11005884	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12217648	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12219070	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1884572	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1916572	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2144863	0.96[ASN][1000 genomes]
rs2273402	0.97[ASN][1000 genomes]
rs2339503	0.98[ASN][1000 genomes]
rs2339507	0.96[ASN][1000 genomes]
rs34122137	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3739989	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4935165	0.99[ASN][1000 genomes]
rs4935711	0.97[ASN][1000 genomes]
rs4935728	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59322641	0.84[AFR][1000 genomes]
rs7079881	0.95[ASN][1000 genomes]
rs7086029	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7090807	0.99[ASN][1000 genomes]
rs74132735	0.84[AFR][1000 genomes]
rs7896315	0.97[ASN][1000 genomes]
rs7920818	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7922802	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs910817	0.95[ASN][1000 genomes]
rs927047	0.95[ASN][1000 genomes]
rs927048	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054775	chr10:51595893-52392361	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1051087	chr10:51886486-52447295	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv916214	chr10:51886486-52458983	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv918212	chr10:51886486-52465482	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv817412	chr10:51911034-52432990	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52192400-52229400	Weak transcription	Aorta	Aorta
2	chr10:52192400-52230400	Weak transcription	HSMM	muscle
3	chr10:52197800-52229800	Weak transcription	Gastric	stomach
4	chr10:52204400-52228600	Weak transcription	NHDF-Ad	bronchial
5	chr10:52208000-52240200	Weak transcription	Esophagus	oesophagus
6	chr10:52208200-52229600	Weak transcription	Right Ventricle	heart
7	chr10:52208400-52230400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr10:52209600-52229200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr10:52211800-52229400	Weak transcription	NHEK	skin
10	chr10:52212800-52229400	Weak transcription	Primary hematopoietic stem cells	blood
11	chr10:52212800-52229600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr10:52215000-52230400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr10:52215200-52228800	Weak transcription	HepG2	liver
14	chr10:52215200-52229000	Weak transcription	Brain Angular Gyrus	brain
15	chr10:52215600-52228600	Weak transcription	HSMMtube	muscle
16	chr10:52215800-52228600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr10:52216400-52228600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr10:52217200-52229600	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr10:52218000-52240200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr10:52218200-52228800	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr10:52218200-52230800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr10:52218400-52229400	Weak transcription	A549	lung
23	chr10:52218600-52228400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr10:52219400-52226000	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr10:52219800-52229000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr10:52220000-52243600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr10:52220200-52230400	Weak transcription	Hela-S3	cervix
28	chr10:52220400-52226800	Weak transcription	Fetal Brain Male	brain
29	chr10:52220400-52227600	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr10:52220400-52227800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr10:52220400-52228400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
32	chr10:52220400-52228400	Weak transcription	Fetal Kidney	kidney
33	chr10:52220400-52228800	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr10:52220400-52228800	Weak transcription	Primary B cells from cord blood	blood
35	chr10:52220400-52229000	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr10:52220400-52229000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr10:52220400-52229000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr10:52220400-52229000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr10:52220400-52229000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr10:52220400-52229000	Weak transcription	Placenta	Placenta
41	chr10:52220400-52229200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr10:52220400-52229200	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr10:52220400-52229200	Weak transcription	Fetal Lung	lung
44	chr10:52220400-52229600	Weak transcription	Fetal Thymus	thymus
45	chr10:52220400-52229800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
46	chr10:52220400-52229800	Weak transcription	Lung	lung
47	chr10:52220400-52230200	Weak transcription	NHLF	lung
48	chr10:52220400-52237800	Weak transcription	Ovary	ovary
49	chr10:52220600-52226800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr10:52220600-52227400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

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