Variant report

Variant	rs169326
Chromosome Location	chr11:32619216-32619217
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	STAT3	chr11:32619099-32619505	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr11:32618439-32620448	K562	blood:	n/a	n/a
3	POLR2A	chr11:32618901-32619939	PFSK-1	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr11:32614271..32616312-chr11:32618406..32621440,3	MCF-7	breast:
2	chr11:32453512..32456485-chr11:32618384..32621260,2	K562	blood:
3	chr11:32604808..32607064-chr11:32618117..32620137,2	MCF-7	breast:

Variant related genes	Relation type
HNRNPA3P9	TF binding region
ENSG00000149100	Chromatin interaction
ENSG00000270903	Chromatin interaction

Extended variants
information (count: 119 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:119)

rs_ID	r²[population]
rs1038554	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10734413	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10742286	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10767954	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10767955	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10767956	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10767961	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10767964	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs10767965	0.89[CHB][hapmap]
rs10767967	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10835956	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10835958	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10835959	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10835966	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10835968	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10835971	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10835972	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10835974	0.89[CHB][hapmap]
rs11031938	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11031940	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11031947	0.88[CHB][hapmap]
rs11031963	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11031969	0.94[CHB][hapmap]
rs12224741	0.89[CHB][hapmap]
rs12293058	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1324397	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1352176	0.89[CHB][hapmap]
rs1396996	0.89[CHB][hapmap]
rs1486580	0.89[CHB][hapmap]
rs1486581	0.89[CHB][hapmap]
rs1486582	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1509888	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1509891	0.88[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap]
rs1543420	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs169323	0.82[MEX][hapmap];0.87[TSI][hapmap];0.81[EUR][1000 genomes]
rs172100	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.95[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap]
rs172101	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs183235	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs201826	0.81[EUR][1000 genomes]
rs201829	0.81[EUR][1000 genomes]
rs201832	0.80[EUR][1000 genomes]
rs201837	0.81[EUR][1000 genomes]
rs201839	0.96[CEU][hapmap];0.97[GIH][hapmap];0.91[MEX][hapmap];0.98[TSI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs201842	0.94[CEU][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs201846	0.89[CHB][hapmap]
rs201847	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs201848	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs201849	1.00[ASN][1000 genomes]
rs201851	0.89[CHB][hapmap]
rs201854	0.83[CHB][hapmap]
rs201856	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs201857	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs201858	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs201860	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs201869	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.95[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap]
rs201872	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs201873	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs201875	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs201876	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs201877	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs201878	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs201879	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs201880	0.89[CHB][hapmap]
rs201881	0.94[ASW][hapmap];0.80[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.91[MEX][hapmap];0.89[MKK][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs201883	0.82[EUR][1000 genomes]
rs201886	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs201892	0.89[CHB][hapmap]
rs201897	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs201899	0.84[ASN][1000 genomes]
rs201901	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs201902	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs201903	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs201904	0.88[CHB][hapmap]
rs201905	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs201906	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2036795	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2129307	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2171242	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2419403	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2419766	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2474147	0.80[EUR][1000 genomes]
rs2748353	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs400655	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs401257	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4551733	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4756149	0.89[CHB][hapmap]
rs4756150	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap]
rs4756179	0.89[CHB][hapmap]
rs4756183	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4756244	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap]
rs4756245	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs511667	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs527728	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap]
rs552512	0.89[CHB][hapmap]
rs567062	0.81[EUR][1000 genomes]
rs6484587	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap]
rs6484597	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7104426	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7104435	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7105305	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7109509	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7118792	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7129723	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs738508	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap]
rs7932758	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7933967	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs7936690	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7938290	0.88[CHB][hapmap]
rs7938914	0.88[EUR][1000 genomes]
rs7942796	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7944621	0.86[CEU][hapmap];0.92[CHB][hapmap]
rs7947996	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs910551	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs926735	0.89[CHB][hapmap]
rs960389	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap]
rs966028	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9787751	0.89[CHB][hapmap]
rs9787914	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9943472	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs169326	QSER1	cis	parietal	SCAN
rs169326	EIF3M	cis	cerebellum	SCAN
rs169326	QSER1	cis	cerebellum	SCAN

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:32607800-32621200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr11:32607800-32628400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr11:32608200-32619400	Strong transcription	HUES6 Cell Line	embryonic stem cell
4	chr11:32608400-32619400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr11:32608400-32619400	Strong transcription	HUES48 Cell Line	embryonic stem cell
6	chr11:32608400-32628200	Strong transcription	HSMM	muscle
7	chr11:32608600-32619400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr11:32608600-32628400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr11:32608800-32628000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr11:32609000-32628200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr11:32609000-32629600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr11:32609200-32623400	Strong transcription	Hela-S3	cervix
13	chr11:32609200-32623800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr11:32609400-32630200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr11:32609800-32619800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr11:32609800-32626000	Strong transcription	NHDF-Ad	bronchial
17	chr11:32609800-32628000	Strong transcription	Fetal Thymus	thymus
18	chr11:32610000-32619800	Strong transcription	Duodenum Smooth Muscle	Duodenum
19	chr11:32610000-32619800	Strong transcription	Left Ventricle	heart
20	chr11:32610000-32620200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr11:32610000-32621200	Strong transcription	Liver	Liver
22	chr11:32610000-32621200	Strong transcription	Rectal Mucosa Donor 29	rectum
23	chr11:32610000-32626000	Strong transcription	Placenta	Placenta
24	chr11:32610000-32626000	Strong transcription	Osteobl	bone
25	chr11:32610000-32627400	Strong transcription	Rectal Mucosa Donor 31	rectum
26	chr11:32610000-32627800	Strong transcription	H1 Cell Line	embryonic stem cell
27	chr11:32610000-32628200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr11:32610200-32619800	Strong transcription	Fetal Lung	lung
29	chr11:32610200-32619800	Strong transcription	Fetal Muscle Trunk	muscle
30	chr11:32610200-32619800	Strong transcription	Sigmoid Colon	Sigmoid Colon
31	chr11:32610200-32621200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
32	chr11:32610200-32621200	Strong transcription	Fetal Intestine Large	intestine
33	chr11:32610200-32624200	Strong transcription	HUVEC	blood vessel
34	chr11:32610200-32626200	Strong transcription	Primary B cells from peripheral blood	blood
35	chr11:32610200-32627400	Strong transcription	Adipose Nuclei	Adipose
36	chr11:32610200-32628200	Strong transcription	Duodenum Mucosa	Duodenum
37	chr11:32610200-32628200	Strong transcription	NH-A	brain
38	chr11:32610400-32619600	Strong transcription	Primary T killer memory cells from peripheral blood	blood
39	chr11:32610400-32619600	Strong transcription	Stomach Smooth Muscle	stomach
40	chr11:32610400-32619800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr11:32610400-32620200	Strong transcription	Muscle Satellite Cultured Cells	--
42	chr11:32610400-32627400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
43	chr11:32610600-32619400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr11:32610600-32619800	Strong transcription	Primary T helper naive cells from peripheral blood	blood
45	chr11:32610600-32620200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr11:32610600-32621000	Strong transcription	Primary T cells fromperipheralblood	blood
47	chr11:32610600-32628000	Strong transcription	GM12878-XiMat	blood
48	chr11:32610600-32628200	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr11:32610800-32619600	Strong transcription	Primary T helper cells PMA-I stimulated	--
50	chr11:32610800-32628200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood

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