Variant report

Variant	rs11189080
Chromosome Location	chr10:99027360-99027361
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10509713	0.93[AMR][1000 genomes]
rs11189041	1.00[GIH][hapmap];1.00[TSI][hapmap]
rs11189055	1.00[CEU][hapmap]
rs11189064	0.87[AMR][1000 genomes]
rs11189065	0.87[AMR][1000 genomes]
rs11189066	0.87[AMR][1000 genomes]
rs11189067	0.87[AMR][1000 genomes]
rs11189072	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189073	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189074	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189076	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189077	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189078	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189081	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189084	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189086	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11189087	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11189090	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189092	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189093	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11189094	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189095	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11189096	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189097	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189098	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11189106	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189107	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189109	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189117	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189118	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189125	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189129	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189136	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11189140	0.87[AMR][1000 genomes]
rs11189141	0.87[AMR][1000 genomes]
rs11189143	0.87[AMR][1000 genomes]
rs11189145	0.93[AMR][1000 genomes]
rs11189146	0.93[AMR][1000 genomes]
rs11189148	0.93[AMR][1000 genomes]
rs11189149	0.93[AMR][1000 genomes]
rs11189158	0.93[AMR][1000 genomes]
rs11189162	0.87[AMR][1000 genomes]
rs11189166	0.93[AMR][1000 genomes]
rs11189170	1.00[MEX][hapmap];0.93[AMR][1000 genomes]
rs11189220	1.00[CEU][hapmap]
rs11189230	1.00[ASW][hapmap]
rs12355279	1.00[CEU][hapmap];0.93[AMR][1000 genomes]
rs12355311	0.87[AMR][1000 genomes]
rs12355523	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12355526	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12356559	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12356626	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12356648	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12356802	1.00[CEU][hapmap]
rs12356909	0.87[AMR][1000 genomes]
rs12358104	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12358257	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12358267	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12358452	0.87[AMR][1000 genomes]
rs12358777	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12359143	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12359467	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12359643	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12359654	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12360068	1.00[ASW][hapmap]
rs12360528	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1414742	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1810982	0.87[AMR][1000 genomes]
rs1970191	0.93[AMR][1000 genomes]
rs1970454	0.93[AMR][1000 genomes]
rs41284270	0.93[AMR][1000 genomes]
rs45527941	0.93[AMR][1000 genomes]
rs7917149	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs884450	0.93[AMR][1000 genomes]
rs9645543	0.87[AMR][1000 genomes]
rs9645559	0.87[AMR][1000 genomes]
rs9645560	0.87[AMR][1000 genomes]
rs9645561	1.00[CEU][hapmap];1.00[YRI][hapmap];0.87[AMR][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	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1041614	chr10:98928281-99083056	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv1045553	chr10:98944397-99122203	Strong transcription Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv540750	chr10:98944397-99122203	Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	esv1797410	chr10:98983785-99041740	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1040903	chr10:98986382-99047475	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv831952	chr10:98998344-99145924	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
8	nsv895914	chr10:99006083-99131676	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98978600-99030400	Weak transcription	NH-A	brain
2	chr10:98978600-99037400	Weak transcription	HSMM	muscle
3	chr10:98978600-99051800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr10:98979000-99027400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr10:98983000-99027400	Weak transcription	Psoas Muscle	Psoas
6	chr10:98983000-99037600	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr10:98983200-99027400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr10:98984600-99037600	Weak transcription	Brain Hippocampus Middle	brain
9	chr10:98986800-99027800	Weak transcription	Gastric	stomach
10	chr10:98987200-99029200	Weak transcription	HMEC	breast
11	chr10:98987200-99051200	Weak transcription	Pancreas	Pancrea
12	chr10:98988800-99028200	Weak transcription	Esophagus	oesophagus
13	chr10:98989000-99034600	Weak transcription	Aorta	Aorta
14	chr10:98989200-99029200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr10:98989600-99038000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr10:98989800-99029800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr10:98990000-99034600	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr10:98994600-99039000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr10:99003800-99028200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr10:99004000-99028000	Weak transcription	NHDF-Ad	bronchial
21	chr10:99004800-99037400	Weak transcription	Fetal Heart	heart
22	chr10:99005200-99046800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr10:99013200-99037600	Weak transcription	NHLF	lung
24	chr10:99015000-99038000	Weak transcription	Fetal Brain Male	brain
25	chr10:99015400-99038200	Weak transcription	Rectal Smooth Muscle	rectum
26	chr10:99016000-99038600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr10:99016200-99030200	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr10:99016200-99038200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr10:99016800-99038600	Weak transcription	HUVEC	blood vessel
30	chr10:99018400-99027400	Weak transcription	Lung	lung
31	chr10:99019200-99034600	Weak transcription	Liver	Liver
32	chr10:99019400-99027400	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr10:99019400-99027600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr10:99019400-99027600	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr10:99019400-99030400	Weak transcription	Adipose Nuclei	Adipose
36	chr10:99019400-99038200	Weak transcription	K562	blood
37	chr10:99019400-99050000	Weak transcription	Primary T helper cells PMA-I stimulated	--
38	chr10:99019400-99051600	Weak transcription	Ovary	ovary
39	chr10:99019600-99027400	Weak transcription	HepG2	liver
40	chr10:99019600-99029800	Weak transcription	Fetal Lung	lung
41	chr10:99020800-99029800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr10:99021400-99051000	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr10:99023400-99027400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr10:99023400-99027600	Strong transcription	Thymus	Thymus
45	chr10:99023600-99051200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr10:99024000-99029600	Weak transcription	Osteobl	bone
47	chr10:99024000-99034400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr10:99024000-99046800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
49	chr10:99024000-99050800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr10:99024200-99029000	Weak transcription	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links