Variant report

Variant	rs10849889
Chromosome Location	chr12:121897098-121897099
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10444489	0.96[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.90[TSI][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10444491	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10444492	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1064951	0.96[CEU][hapmap];0.85[CHB][hapmap];0.93[CHD][hapmap];0.92[MEX][hapmap];0.93[MKK][hapmap];0.90[TSI][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10744763	0.96[CEU][hapmap];0.88[TSI][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10744764	0.96[CEU][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10774594	0.92[CEU][hapmap];0.85[CHB][hapmap];0.98[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10774595	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10774596	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10774597	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10774598	0.96[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10849873	0.92[CEU][hapmap];0.85[CHB][hapmap];0.82[JPT][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10849875	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10849877	0.92[CEU][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10849878	0.92[CEU][hapmap];0.84[CHB][hapmap];0.88[JPT][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10849879	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10849880	0.92[CEU][hapmap];0.85[CHB][hapmap];0.98[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10849882	0.88[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10849884	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10849885	0.92[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];0.87[MEX][hapmap];0.93[MKK][hapmap];0.85[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10849887	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10849891	1.00[ASW][hapmap];0.92[CEU][hapmap];0.86[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11065549	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11065551	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11065563	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11065565	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11065575	0.92[CEU][hapmap];0.85[CHB][hapmap];0.91[CHD][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.90[TSI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11065576	0.92[CEU][hapmap];0.80[CHB][hapmap];0.95[CHD][hapmap];0.82[JPT][hapmap];0.96[MEX][hapmap];0.94[MKK][hapmap];0.90[TSI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11065577	0.96[CEU][hapmap];0.84[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11065578	0.96[CEU][hapmap];0.84[CHB][hapmap];0.82[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11065579	0.96[CEU][hapmap];0.85[CHB][hapmap];0.82[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11065582	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11065583	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11065585	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11838335	0.96[CEU][hapmap];0.81[CHB][hapmap];0.82[CHD][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12427382	0.92[CEU][hapmap];0.80[CHB][hapmap];0.95[CHD][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.90[TSI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12578785	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12581843	0.92[CEU][hapmap];0.85[CHB][hapmap];0.91[CHD][hapmap];0.84[GIH][hapmap];0.82[JPT][hapmap];0.96[MEX][hapmap];0.83[MKK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12581861	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2288154	0.96[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.82[JPT][hapmap];0.96[MEX][hapmap];0.90[TSI][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28604990	0.87[ASW][hapmap];1.00[YRI][hapmap]
rs28663167	0.87[ASW][hapmap];1.00[YRI][hapmap]
rs3751131	0.96[CEU][hapmap];0.85[CHB][hapmap];0.82[JPT][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3817543	0.96[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3817544	0.96[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.90[TSI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3817545	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3817546	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3817547	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3817549	0.96[CEU][hapmap];0.85[CHB][hapmap];0.82[JPT][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3817551	0.96[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.90[TSI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4081775	0.92[CEU][hapmap];0.85[CHB][hapmap];0.98[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4980986	0.87[ASW][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.81[JPT][hapmap];0.88[LWK][hapmap];0.84[MEX][hapmap];0.92[MKK][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4980994	0.87[ASW][hapmap];0.88[CHD][hapmap];0.90[GIH][hapmap];0.86[JPT][hapmap];0.88[LWK][hapmap];0.84[MEX][hapmap];0.83[MKK][hapmap];0.82[TSI][hapmap];1.00[YRI][hapmap]
rs57185007	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57889600	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57971979	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58609847	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58849369	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59103597	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59190874	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61953461	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61953462	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61953497	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61955092	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61955131	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61955132	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61955138	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6489812	0.84[AMR][1000 genomes]
rs7972181	0.83[ASN][1000 genomes]
rs9300314	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs951498	0.92[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.90[TSI][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9634167	0.96[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.90[TSI][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9634168	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10849889	NME2P1	cis	cerebellum	SCAN
rs10849889	TMEM120B	cis	cerebellum	SCAN
rs10849889	TAOK3	cis	parietal	SCAN

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:121861400-121903600	Weak transcription	Right Atrium	heart
2	chr12:121879200-121898600	Weak transcription	HSMMtube	muscle
3	chr12:121879200-121903400	Weak transcription	Hela-S3	cervix
4	chr12:121879200-121904000	Weak transcription	Small Intestine	intestine
5	chr12:121880000-121903600	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr12:121880000-121904000	Weak transcription	Aorta	Aorta
7	chr12:121880800-121902800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr12:121881800-121903400	Weak transcription	A549	lung
9	chr12:121883200-121903600	Weak transcription	Brain Anterior Caudate	brain
10	chr12:121883400-121903200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr12:121885600-121903600	Weak transcription	Liver	Liver
12	chr12:121887200-121902200	Weak transcription	Fetal Brain Male	brain
13	chr12:121889400-121902000	Weak transcription	K562	blood
14	chr12:121889800-121903400	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr12:121890200-121899200	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr12:121890200-121903400	Weak transcription	Fetal Lung	lung
17	chr12:121890400-121902800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr12:121890400-121903400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr12:121890600-121898200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr12:121890800-121898600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr12:121890800-121902200	Weak transcription	HepG2	liver
22	chr12:121890800-121902200	Weak transcription	NHLF	lung
23	chr12:121890800-121902800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr12:121890800-121903400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr12:121890800-121903400	Weak transcription	Duodenum Mucosa	Duodenum
26	chr12:121890800-121903400	Weak transcription	Fetal Intestine Large	intestine
27	chr12:121890800-121903400	Weak transcription	HMEC	breast
28	chr12:121890800-121903400	Weak transcription	NHEK	skin
29	chr12:121890800-121903600	Weak transcription	NHDF-Ad	bronchial
30	chr12:121891000-121899400	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr12:121891000-121899800	Weak transcription	Brain Germinal Matrix	brain
32	chr12:121891000-121902200	Weak transcription	Pancreas	Pancrea
33	chr12:121891000-121903200	Weak transcription	Primary hematopoietic stem cells	blood
34	chr12:121891000-121903200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr12:121891000-121903400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr12:121891200-121902000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr12:121891200-121902200	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr12:121891200-121902200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr12:121891200-121902400	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr12:121891200-121903600	Weak transcription	Colonic Mucosa	Colon
41	chr12:121891200-121903800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr12:121891400-121899000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr12:121891400-121902200	Weak transcription	HUES48 Cell Line	embryonic stem cell
44	chr12:121891400-121903400	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr12:121891400-121903600	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr12:121891800-121904000	Weak transcription	Lung	lung
47	chr12:121892200-121903400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
48	chr12:121892800-121902200	Weak transcription	Brain Inferior Temporal Lobe	brain
49	chr12:121892800-121903600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr12:121893000-121899200	Weak transcription	Brain Cingulate Gyrus	brain

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