Variant report

Variant	rs10774598
Chromosome Location	chr12:121908509-121908510
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:121908083..121909947-chr6:33379733..33381341,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112511	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10444489	1.00[CEU][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.90[TSI][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10444491	0.90[AMR][1000 genomes]
rs10444492	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1064951	1.00[CEU][hapmap];0.91[CHD][hapmap];0.86[GIH][hapmap];0.96[LWK][hapmap];0.92[MEX][hapmap];0.96[MKK][hapmap];0.90[TSI][hapmap];0.87[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10744763	1.00[CEU][hapmap];0.86[GIH][hapmap];0.88[TSI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10744764	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10774594	0.96[CEU][hapmap];0.91[CHD][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.88[TSI][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10774595	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10774596	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10774597	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10849873	0.96[CEU][hapmap];0.82[JPT][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10849877	0.96[CEU][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10849878	0.96[CEU][hapmap];0.88[JPT][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10849879	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10849880	0.96[CEU][hapmap];0.91[CHD][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.90[TSI][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10849882	0.92[CEU][hapmap];0.93[CHD][hapmap];0.89[GIH][hapmap];0.82[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10849884	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10849885	0.96[CEU][hapmap];0.89[CHD][hapmap];0.82[JPT][hapmap];0.96[LWK][hapmap];0.87[MEX][hapmap];0.96[MKK][hapmap];0.85[TSI][hapmap];0.87[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10849887	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10849888	0.84[ASW][hapmap];0.90[LWK][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes]
rs10849889	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]
rs10849891	0.96[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11065549	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11065551	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11065563	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11065565	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11065575	0.96[CEU][hapmap];0.89[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.90[TSI][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11065576	0.96[CEU][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];0.90[TSI][hapmap];0.88[YRI][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11065577	1.00[CEU][hapmap];0.82[JPT][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11065578	1.00[CEU][hapmap];0.82[JPT][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11065579	1.00[CEU][hapmap];0.82[JPT][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11065582	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11065583	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11065585	0.96[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11838335	1.00[CEU][hapmap];0.81[CHD][hapmap];0.84[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12427382	0.96[CEU][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.90[TSI][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12578785	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12581843	0.96[CEU][hapmap];0.85[CHD][hapmap];0.82[JPT][hapmap];0.96[MEX][hapmap];0.88[TSI][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12581861	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2288154	1.00[CEU][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3751131	1.00[CEU][hapmap];0.82[JPT][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3817543	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3817544	1.00[CEU][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.90[TSI][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3817545	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3817546	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3817547	0.86[AMR][1000 genomes]
rs3817549	1.00[CEU][hapmap];0.82[JPT][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3817551	1.00[CEU][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.90[TSI][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4081775	0.96[CEU][hapmap];0.91[CHD][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.88[TSI][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4980986	0.86[CHD][hapmap];0.81[JPT][hapmap];0.84[MEX][hapmap];0.82[MKK][hapmap];0.84[TSI][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4980994	0.82[CHD][hapmap];0.86[JPT][hapmap];0.84[MEX][hapmap];0.82[TSI][hapmap]
rs57185007	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57889600	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs57971979	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs58609847	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58849369	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs59103597	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs59190874	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61953461	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61953462	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61953497	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61955092	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61955131	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61955132	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61955138	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6489812	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7972181	0.81[ASN][1000 genomes]
rs9300314	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs951498	0.96[CEU][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.90[TSI][hapmap];0.88[YRI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9634167	1.00[CEU][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.90[TSI][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9634168	0.83[AMR][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10774598	TAOK3	cis	parietal	SCAN
rs10774598	NME2P1	cis	cerebellum	SCAN
rs10774598	TMEM120B	cis	cerebellum	SCAN

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:121905800-121923200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr12:121906000-121908800	Enhancers	Primary B cells from peripheral blood	blood
3	chr12:121906000-121909200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr12:121906000-121910000	Weak transcription	Liver	Liver
5	chr12:121906000-121910800	Weak transcription	Pancreas	Pancrea
6	chr12:121906000-121916600	Weak transcription	Gastric	stomach
7	chr12:121906000-121921400	Weak transcription	Thymus	Thymus
8	chr12:121906000-121927400	Weak transcription	Lung	lung
9	chr12:121906000-121927600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr12:121906000-121927600	Weak transcription	Duodenum Mucosa	Duodenum
11	chr12:121906000-121937800	Weak transcription	Aorta	Aorta
12	chr12:121906000-121938000	Weak transcription	Left Ventricle	heart
13	chr12:121906200-121912000	Weak transcription	Fetal Intestine Small	intestine
14	chr12:121906200-121914000	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr12:121906200-121914600	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr12:121906200-121914600	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr12:121906200-121919800	Weak transcription	Fetal Thymus	thymus
18	chr12:121906200-121920400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr12:121906200-121922800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr12:121906200-121927400	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr12:121906200-121927600	Weak transcription	Spleen	Spleen
22	chr12:121906200-121928200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr12:121906200-121938000	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr12:121906400-121909200	Weak transcription	K562	blood
25	chr12:121906400-121910200	Weak transcription	Fetal Kidney	kidney
26	chr12:121906400-121910200	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr12:121906400-121912000	Weak transcription	Fetal Stomach	stomach
28	chr12:121906400-121912600	Weak transcription	Dnd41	blood
29	chr12:121906400-121914400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
30	chr12:121906400-121917600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr12:121906400-121917800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr12:121906400-121919000	Weak transcription	GM12878-XiMat	blood
33	chr12:121906400-121920400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr12:121906400-121921400	Weak transcription	Fetal Brain Male	brain
35	chr12:121906400-121921600	Weak transcription	Primary T cells from cord blood	blood
36	chr12:121906400-121927600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr12:121906400-121929000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr12:121906400-121933400	Weak transcription	Brain Cingulate Gyrus	brain
39	chr12:121906400-121933400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr12:121906400-121933800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr12:121906600-121909200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr12:121906600-121909200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr12:121906600-121909200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr12:121906600-121914600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr12:121906600-121914600	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr12:121906600-121921000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr12:121906600-121927400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr12:121906600-121927600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
49	chr12:121906600-121927600	Weak transcription	Primary T helper cells fromperipheralblood	blood
50	chr12:121906600-121927600	Weak transcription	Fetal Brain Female	brain

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