Variant report

Variant	rs1293467
Chromosome Location	chr6:44769204-44769205
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 163 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:163)

rs_ID	r²[population]
rs1041333	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10456119	0.81[ASN][1000 genomes]
rs10484627	0.84[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs10948183	0.95[CHB][hapmap];0.82[ASN][1000 genomes]
rs10948185	0.89[CHB][hapmap];0.81[CHD][hapmap]
rs10948186	0.92[CEU][hapmap];0.89[CHB][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10948187	0.94[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[CHD][hapmap];0.95[GIH][hapmap];0.81[LWK][hapmap];0.95[MEX][hapmap];0.89[MKK][hapmap];0.93[TSI][hapmap];0.92[YRI][hapmap];0.82[EUR][1000 genomes]
rs10948188	0.89[CHB][hapmap];0.82[CHD][hapmap];0.91[MEX][hapmap]
rs10948190	0.94[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[CHD][hapmap];0.88[LWK][hapmap];0.95[MEX][hapmap];0.84[MKK][hapmap];0.93[TSI][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs10948194	0.94[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[CHD][hapmap];0.95[GIH][hapmap];0.88[LWK][hapmap];0.95[MEX][hapmap];0.87[MKK][hapmap];0.91[TSI][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs10948197	0.89[CHB][hapmap];0.82[CHD][hapmap]
rs11967188	0.88[CHB][hapmap]
rs12190136	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12190513	0.94[CHB][hapmap]
rs12191518	0.82[AFR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12192367	1.00[CHB][hapmap];0.83[JPT][hapmap];0.96[ASN][1000 genomes]
rs12196818	0.89[CHB][hapmap]
rs12207620	0.80[ASN][1000 genomes]
rs12209076	0.82[ASN][1000 genomes]
rs12214778	0.89[CHB][hapmap];0.82[CHD][hapmap]
rs12525009	0.84[CHB][hapmap];0.81[ASN][1000 genomes]
rs12526711	0.82[CHB][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs12529522	0.82[JPT][hapmap]
rs12530016	0.82[JPT][hapmap]
rs1293457	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1293598	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13199289	0.82[ASN][1000 genomes]
rs13206526	0.88[JPT][hapmap]
rs13213412	0.81[ASN][1000 genomes]
rs13215618	1.00[CHB][hapmap]
rs13216116	0.89[CHB][hapmap];0.82[CHD][hapmap];0.91[MEX][hapmap]
rs1329710	0.89[CHB][hapmap];0.82[CHD][hapmap]
rs1329716	0.93[CEU][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];0.91[GIH][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap]
rs1342370	0.96[ASN][1000 genomes]
rs1360197	0.89[CHB][hapmap]
rs1402599	0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs1418434	0.96[ASN][1000 genomes]
rs1521355	0.89[CHB][hapmap]
rs1557143	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1576382	0.81[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs16869119	0.88[JPT][hapmap]
rs16872574	0.81[ASN][1000 genomes]
rs17422760	0.84[CHB][hapmap];0.83[JPT][hapmap];0.91[MEX][hapmap];0.81[ASN][1000 genomes]
rs1854547	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1891411	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1891412	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1935549	0.80[ASN][1000 genomes]
rs1935551	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1980265	0.94[ASW][hapmap];0.93[CEU][hapmap];0.95[CHB][hapmap];0.82[CHD][hapmap];0.95[GIH][hapmap];0.88[LWK][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2038555	0.94[ASN][1000 genomes]
rs2038556	0.96[ASN][1000 genomes]
rs2038557	0.96[ASN][1000 genomes]
rs2040032	0.96[ASN][1000 genomes]
rs2139863	0.88[JPT][hapmap]
rs2145826	0.92[EUR][1000 genomes]
rs227849	0.85[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.96[GIH][hapmap];0.83[JPT][hapmap];0.91[LWK][hapmap];0.91[MEX][hapmap];0.90[MKK][hapmap];0.91[TSI][hapmap];0.89[YRI][hapmap];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs227850	0.87[TSI][hapmap]
rs227851	0.84[TSI][hapmap]
rs227852	0.87[CHD][hapmap]
rs227853	0.87[CHD][hapmap]
rs2396369	0.89[CHB][hapmap];0.82[CHD][hapmap];0.85[GIH][hapmap]
rs2396370	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs2396371	1.00[CEU][hapmap];0.94[CHB][hapmap];0.81[EUR][1000 genomes]
rs2396372	0.89[CHB][hapmap]
rs2894599	0.81[ASN][1000 genomes]
rs34808716	0.81[ASN][1000 genomes]
rs34817919	0.81[ASN][1000 genomes]
rs3778507	0.94[ASW][hapmap];0.93[CEU][hapmap];0.95[CHB][hapmap];0.82[CHD][hapmap];0.95[GIH][hapmap];0.88[LWK][hapmap];0.95[MEX][hapmap];0.90[MKK][hapmap];0.93[TSI][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3799965	0.88[JPT][hapmap]
rs3799967	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3799968	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.83[JPT][hapmap];0.88[LWK][hapmap];0.95[MEX][hapmap];0.90[MKK][hapmap];0.93[TSI][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3799971	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3799972	0.88[JPT][hapmap]
rs3799973	0.94[CHB][hapmap];0.87[JPT][hapmap];0.87[ASN][1000 genomes]
rs3799974	0.88[JPT][hapmap]
rs3799976	0.89[CHB][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs3799977	0.89[CHB][hapmap];0.82[CHD][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs3799979	0.89[CHB][hapmap];0.82[CHD][hapmap];0.83[JPT][hapmap]
rs3799981	0.89[CHB][hapmap];0.82[ASN][1000 genomes]
rs3799984	0.89[CHB][hapmap];0.83[JPT][hapmap]
rs3799986	0.89[CHB][hapmap];0.82[CHD][hapmap]
rs3823252	0.88[JPT][hapmap]
rs3846896	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3957281	0.81[ASN][1000 genomes]
rs4711798	0.96[ASN][1000 genomes]
rs4711799	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711803	0.82[ASN][1000 genomes]
rs4711805	0.81[ASN][1000 genomes]
rs4711807	0.89[CHB][hapmap]
rs4714812	0.87[CHD][hapmap];0.82[JPT][hapmap]
rs4714819	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4714820	0.94[ASN][1000 genomes]
rs4714821	0.93[ASN][1000 genomes]
rs4714822	0.96[ASN][1000 genomes]
rs4714825	0.80[ASN][1000 genomes]
rs4714828	0.89[CHB][hapmap];0.82[CHD][hapmap];0.83[JPT][hapmap];0.80[ASN][1000 genomes]
rs4714830	0.89[CHB][hapmap];0.82[CHD][hapmap]
rs472672	0.80[ASN][1000 genomes]
rs494982	1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[CHD][hapmap];0.93[GIH][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap]
rs500773	0.82[ASN][1000 genomes]
rs524492	0.88[JPT][hapmap]
rs538801	0.89[CHB][hapmap];0.81[ASN][1000 genomes]
rs542444	0.88[JPT][hapmap]
rs562016	0.80[ASN][1000 genomes]
rs588848	0.81[ASN][1000 genomes]
rs59881382	0.85[ASN][1000 genomes]
rs608941	0.89[CHB][hapmap];0.82[CHD][hapmap];0.81[ASN][1000 genomes]
rs636845	0.93[CEU][hapmap];0.95[CHB][hapmap];0.82[CHD][hapmap];0.95[GIH][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.81[EUR][1000 genomes]
rs6458415	1.00[CEU][hapmap];0.95[CHB][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs66642874	0.81[ASN][1000 genomes]
rs6903576	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6904015	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6910294	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.82[MKK][hapmap];0.92[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6910749	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923519	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6925017	0.88[CHB][hapmap]
rs6940547	0.83[AFR][1000 genomes]
rs71564699	0.83[ASN][1000 genomes]
rs718112	0.81[ASN][1000 genomes]
rs72664273	0.80[ASN][1000 genomes]
rs72664274	0.81[ASN][1000 genomes]
rs764396	0.85[ASN][1000 genomes]
rs764397	0.85[ASN][1000 genomes]
rs7747642	0.80[ASN][1000 genomes]
rs7749865	0.89[CHB][hapmap]
rs7754378	0.95[CHB][hapmap];0.82[CHD][hapmap];0.83[JPT][hapmap];0.91[MEX][hapmap];0.81[ASN][1000 genomes]
rs7754698	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7763421	0.82[ASN][1000 genomes]
rs7769218	0.86[JPT][hapmap]
rs7775717	0.89[CHB][hapmap]
rs929614	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296448	0.80[EUR][1000 genomes]
rs9296450	0.84[CHB][hapmap]
rs9349303	0.93[CEU][hapmap];0.89[TSI][hapmap];0.85[EUR][1000 genomes]
rs9357459	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9357464	1.00[CEU][hapmap];0.94[CHB][hapmap];0.82[EUR][1000 genomes]
rs9367208	0.87[AFR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9367211	0.94[ASW][hapmap];1.00[CEU][hapmap];0.95[GIH][hapmap];0.82[JPT][hapmap];0.88[LWK][hapmap];0.91[MEX][hapmap];0.90[MKK][hapmap];0.91[TSI][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9369512	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9369513	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9369514	0.94[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.94[JPT][hapmap];0.94[LWK][hapmap];0.91[MEX][hapmap];0.98[MKK][hapmap];0.93[TSI][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9369515	0.85[EUR][1000 genomes]
rs9369516	0.94[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[CHD][hapmap];0.95[GIH][hapmap];0.83[JPT][hapmap];0.88[LWK][hapmap];0.95[MEX][hapmap];0.90[MKK][hapmap];0.93[TSI][hapmap];0.92[YRI][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9369519	0.81[AFR][1000 genomes]
rs9369523	0.85[CEU][hapmap]
rs9395049	0.96[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];0.89[JPT][hapmap];0.83[TSI][hapmap];0.97[ASN][1000 genomes]
rs9395051	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[CHD][hapmap];0.95[GIH][hapmap];0.88[JPT][hapmap];0.88[LWK][hapmap];0.95[MEX][hapmap];0.90[MKK][hapmap];0.93[TSI][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9395055	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9463054	0.81[EUR][1000 genomes]
rs9463055	0.82[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs9472331	0.82[JPT][hapmap]
rs9472336	0.85[ASN][1000 genomes]
rs9472339	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9472360	0.96[ASN][1000 genomes]
rs9472376	0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs9472383	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9472403	0.80[EUR][1000 genomes]
rs9472407	0.94[CHB][hapmap];0.82[JPT][hapmap]
rs9472409	0.95[CHB][hapmap];0.82[CHD][hapmap];0.91[MEX][hapmap]
rs9472414	0.84[CHB][hapmap]
rs9472416	0.94[CHB][hapmap]
rs9472418	0.93[CEU][hapmap]
rs976699	1.00[CEU][hapmap];0.94[CHB][hapmap];0.91[YRI][hapmap];0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs1293467	SUPT3H	cis	parietal	SCAN
rs1293467	C6orf226	cis	cerebellum	SCAN
rs1293467	SUPT3H	cis	lymphoblastoid	seeQTL
rs1293467	SUPT3H	cis	cerebellum	SCAN
rs1293467	SUPT3H	cis	multi-tissue	Pritchard

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:44761800-44776200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr6:44767200-44769600	Enhancers	Psoas Muscle	Psoas
3	chr6:44767800-44769400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr6:44768000-44769400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr6:44768000-44769400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr6:44768000-44769400	Bivalent Enhancer	Fetal Muscle Leg	muscle
7	chr6:44768200-44769600	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
8	chr6:44768400-44769400	Enhancers	Skeletal Muscle Female	skeletal muscle
9	chr6:44768400-44769600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr6:44768400-44772200	Weak transcription	Liver	Liver
11	chr6:44768600-44769400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:44768600-44772600	Weak transcription	Colon Smooth Muscle	Colon
13	chr6:44768800-44770000	Enhancers	Adipose Nuclei	Adipose
14	chr6:44768800-44772200	Weak transcription	Fetal Intestine Small	intestine
15	chr6:44768800-44772400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr6:44768800-44773400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr6:44769000-44769400	Weak transcription	Fetal Lung	lung
18	chr6:44769000-44770600	Enhancers	Primary monocytes fromperipheralblood	blood
19	chr6:44769000-44775400	Weak transcription	Pancreas	Pancrea
20	chr6:44769200-44769400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr6:44769200-44772200	Weak transcription	Fetal Intestine Large	intestine
22	chr6:44769200-44776000	Weak transcription	Ovary	ovary

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