Variant report

Variant	rs16917746
Chromosome Location	chr12:8904484-8904485
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 114 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:114)

rs_ID	r²[population]
rs10082771	1.00[ASN][1000 genomes]
rs10128818	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10505736	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10842109	1.00[ASN][1000 genomes]
rs10842131	1.00[ASN][1000 genomes]
rs11046766	1.00[ASN][1000 genomes]
rs11046832	1.00[ASN][1000 genomes]
rs11046858	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.86[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11046872	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11046887	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11046900	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.81[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11047042	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11047068	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11612882	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11616092	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12296571	0.92[ASN][1000 genomes]
rs12296587	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12296895	1.00[ASN][1000 genomes]
rs12297411	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12299708	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12300013	1.00[ASN][1000 genomes]
rs12302099	1.00[JPT][hapmap]
rs12303273	1.00[JPT][hapmap]
rs12303275	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12304092	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12304853	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12306245	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12306562	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12307610	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.86[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12309618	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12311263	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12311861	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12312128	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12314360	1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs12314822	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12316311	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12318215	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1476902	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16917739	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2159889	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2302488	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35146959	1.00[ASN][1000 genomes]
rs3858672	1.00[ASN][1000 genomes]
rs56094803	1.00[ASN][1000 genomes]
rs56113263	1.00[ASN][1000 genomes]
rs56387756	1.00[ASN][1000 genomes]
rs56837371	1.00[ASN][1000 genomes]
rs56878267	1.00[ASN][1000 genomes]
rs57676185	1.00[ASN][1000 genomes]
rs57747511	1.00[ASN][1000 genomes]
rs58333563	0.83[ASN][1000 genomes]
rs58451473	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs58503001	0.83[ASN][1000 genomes]
rs58544193	0.83[ASN][1000 genomes]
rs58612925	1.00[ASN][1000 genomes]
rs58732156	1.00[ASN][1000 genomes]
rs58863166	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58866787	1.00[ASN][1000 genomes]
rs58998046	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59235894	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs59306936	1.00[ASN][1000 genomes]
rs59562279	1.00[ASN][1000 genomes]
rs59566766	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59750351	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59824700	1.00[ASN][1000 genomes]
rs59935835	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60048072	1.00[ASN][1000 genomes]
rs60224353	1.00[ASN][1000 genomes]
rs60331702	1.00[ASN][1000 genomes]
rs60932450	1.00[ASN][1000 genomes]
rs61054720	1.00[ASN][1000 genomes]
rs61101189	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61187268	1.00[ASN][1000 genomes]
rs61395640	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61431903	1.00[ASN][1000 genomes]
rs61450603	1.00[ASN][1000 genomes]
rs6487313	1.00[JPT][hapmap]
rs6487333	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6487347	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6487353	1.00[ASN][1000 genomes]
rs6487354	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.90[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6487361	1.00[CEU][hapmap];0.87[YRI][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7132012	0.82[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7136480	1.00[ASN][1000 genomes]
rs7139182	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.84[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7299203	1.00[ASN][1000 genomes]
rs73036906	1.00[ASN][1000 genomes]
rs7303757	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7307494	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7313569	1.00[CEU][hapmap];0.86[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7313580	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7313614	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.86[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7316051	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74059963	1.00[ASN][1000 genomes]
rs74059966	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74059968	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74059969	1.00[ASN][1000 genomes]
rs74059978	1.00[ASN][1000 genomes]
rs74059985	1.00[ASN][1000 genomes]
rs74059990	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs74059992	1.00[ASN][1000 genomes]
rs74061803	1.00[ASN][1000 genomes]
rs74061818	1.00[ASN][1000 genomes]
rs7954527	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7955163	0.89[YRI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7960582	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7961340	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7964869	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7968935	0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7972763	1.00[ASN][1000 genomes]
rs7973476	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7975293	1.00[ASN][1000 genomes]
rs7975977	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7977372	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs16917746	CSTA	trans	lymphoblastoid	seeQTL
rs16917746	CD2	trans	lymphoblastoid	seeQTL

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:8852800-8908600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr12:8853200-8934000	Weak transcription	K562	blood
3	chr12:8862800-8905400	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr12:8862800-8908000	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr12:8868200-8905400	Weak transcription	Right Ventricle	heart
6	chr12:8875800-8933200	Weak transcription	Fetal Kidney	kidney
7	chr12:8878400-8923600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr12:8878400-8937200	Weak transcription	Brain Cingulate Gyrus	brain
9	chr12:8882200-8904800	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr12:8882200-8938400	Weak transcription	Spleen	Spleen
11	chr12:8882200-8939400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr12:8882400-8905800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr12:8883200-8904600	Weak transcription	Fetal Brain Female	brain
14	chr12:8883400-8938800	Weak transcription	Primary B cells from cord blood	blood
15	chr12:8886600-8912200	Weak transcription	Small Intestine	intestine
16	chr12:8888800-8932000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr12:8889200-8917400	Weak transcription	Fetal Heart	heart
18	chr12:8889200-8935800	Weak transcription	A549	lung
19	chr12:8889200-8936600	Weak transcription	Brain Angular Gyrus	brain
20	chr12:8890400-8911000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr12:8890600-8937000	Weak transcription	Colon Smooth Muscle	Colon
22	chr12:8893600-8905000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr12:8893800-8911000	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr12:8894200-8937800	Weak transcription	Esophagus	oesophagus
25	chr12:8894400-8907200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr12:8894400-8920800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr12:8895400-8905400	Weak transcription	Rectal Smooth Muscle	rectum
28	chr12:8895400-8923200	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr12:8895400-8927600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr12:8895600-8904600	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr12:8895600-8904600	Weak transcription	Osteobl	bone
32	chr12:8895600-8904800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr12:8895600-8904800	Weak transcription	Aorta	Aorta
34	chr12:8895600-8904800	Weak transcription	Lung	lung
35	chr12:8895600-8906200	Weak transcription	Left Ventricle	heart
36	chr12:8895600-8906400	Weak transcription	HSMM	muscle
37	chr12:8895600-8909000	Weak transcription	NHDF-Ad	bronchial
38	chr12:8895600-8911200	Weak transcription	Duodenum Smooth Muscle	Duodenum
39	chr12:8895600-8935200	Weak transcription	HMEC	breast
40	chr12:8895600-8937800	Weak transcription	HSMMtube	muscle
41	chr12:8895600-8941200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr12:8895800-8904800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr12:8895800-8906200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr12:8896000-8908000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr12:8896600-8905600	Weak transcription	Duodenum Mucosa	Duodenum
46	chr12:8897000-8906400	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr12:8897000-8907000	Weak transcription	Brain Germinal Matrix	brain
48	chr12:8897000-8908000	Weak transcription	Brain Hippocampus Middle	brain
49	chr12:8897000-8931400	Weak transcription	Brain Anterior Caudate	brain
50	chr12:8897200-8905600	Weak transcription	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links