Variant report

Variant	rs9472376
Chromosome Location	chr6:44800247-44800248
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 141 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:141)

rs_ID	r²[population]
rs1023091	0.88[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs1028944	0.88[CHB][hapmap];1.00[CHD][hapmap];0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs10484627	0.83[CHD][hapmap];0.83[JPT][hapmap]
rs10948185	0.89[CHD][hapmap]
rs10948187	0.87[CHD][hapmap]
rs10948188	0.86[CHD][hapmap]
rs10948190	0.87[CHD][hapmap]
rs10948194	0.87[CHD][hapmap]
rs10948197	0.87[CHD][hapmap]
rs1159131	0.84[CHD][hapmap]
rs12190136	0.81[ASN][1000 genomes]
rs12196818	0.84[CHD][hapmap]
rs12214778	0.87[CHD][hapmap]
rs12525773	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12526711	0.82[JPT][hapmap]
rs12526755	0.86[ASN][1000 genomes]
rs12527908	0.89[ASN][1000 genomes]
rs12528232	0.88[CHB][hapmap];0.97[CHD][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs12529522	0.81[CHB][hapmap];0.94[CHD][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs12530016	0.83[ASW][hapmap];0.86[CEU][hapmap];0.81[CHB][hapmap];0.94[CHD][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];0.82[TSI][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12661902	0.84[ASN][1000 genomes]
rs12663530	0.86[ASN][1000 genomes]
rs12663798	0.86[ASN][1000 genomes]
rs1293457	0.81[ASN][1000 genomes]
rs1293467	0.81[ASN][1000 genomes]
rs13199289	0.81[ASN][1000 genomes]
rs13202672	0.97[ASN][1000 genomes]
rs13206526	0.88[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs13209827	0.88[CHB][hapmap];0.88[JPT][hapmap]
rs13215618	0.83[CHB][hapmap]
rs13216116	0.87[CHD][hapmap]
rs13216967	0.84[ASN][1000 genomes]
rs1329710	0.87[CHD][hapmap]
rs1329715	0.88[CHB][hapmap];0.97[CHD][hapmap];0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs1329716	0.89[CHD][hapmap]
rs1360195	0.88[CHB][hapmap];0.97[CHD][hapmap];0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs1402599	1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.92[TSI][hapmap];0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1418435	0.85[ASN][1000 genomes]
rs1557143	0.81[ASN][1000 genomes]
rs16869119	0.94[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs16872574	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17422760	0.83[CHD][hapmap];0.83[JPT][hapmap]
rs1891411	0.81[ASN][1000 genomes]
rs1891412	0.81[ASN][1000 genomes]
rs1935549	0.99[ASN][1000 genomes]
rs1935551	0.80[ASN][1000 genomes]
rs1980265	0.87[CHD][hapmap]
rs2139863	0.93[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs227852	0.94[CHB][hapmap];0.82[CHD][hapmap]
rs227853	0.94[CHB][hapmap];0.82[CHD][hapmap]
rs227857	0.84[ASN][1000 genomes]
rs2396369	0.87[CHD][hapmap]
rs2396371	0.83[CHB][hapmap];0.81[YRI][hapmap]
rs2396372	0.89[CHD][hapmap]
rs2894599	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34243039	0.95[ASN][1000 genomes]
rs34286542	0.85[ASN][1000 genomes]
rs34776198	0.98[ASN][1000 genomes]
rs34817919	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35103634	0.86[ASN][1000 genomes]
rs35687006	0.88[CHB][hapmap];0.97[CHD][hapmap];0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs35704584	0.86[ASN][1000 genomes]
rs35856781	0.95[ASN][1000 genomes]
rs35908738	0.85[ASN][1000 genomes]
rs36105034	0.85[ASN][1000 genomes]
rs3778507	0.87[CHD][hapmap]
rs3799965	0.93[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs3799966	0.97[ASN][1000 genomes]
rs3799967	0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs3799969	0.98[ASN][1000 genomes]
rs3799970	0.98[ASN][1000 genomes]
rs3799971	0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs3799972	0.94[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs3799973	0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs3799974	0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs3799976	0.83[JPT][hapmap]
rs3799977	0.87[CHD][hapmap];0.83[JPT][hapmap]
rs3799979	0.87[CHD][hapmap];0.83[JPT][hapmap]
rs3799984	0.83[JPT][hapmap]
rs3799986	0.87[CHD][hapmap]
rs3799987	0.88[CHB][hapmap];0.97[CHD][hapmap];0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs3823252	0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs3846896	0.80[ASN][1000 genomes]
rs3997503	0.86[ASN][1000 genomes]
rs4475320	0.86[ASN][1000 genomes]
rs4512220	0.88[CHB][hapmap];0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs4711799	0.81[ASN][1000 genomes]
rs4711809	0.81[CHB][hapmap];0.89[CHD][hapmap];0.83[ASN][1000 genomes]
rs4714812	0.80[CEU][hapmap];0.94[CHB][hapmap];0.82[CHD][hapmap];0.82[JPT][hapmap]
rs4714821	0.80[ASN][1000 genomes]
rs4714825	0.99[ASN][1000 genomes]
rs4714827	0.95[ASN][1000 genomes]
rs4714828	0.87[CHD][hapmap];0.83[JPT][hapmap]
rs4714829	0.86[ASN][1000 genomes]
rs4714830	0.87[CHD][hapmap]
rs4714834	0.88[CHB][hapmap];0.97[CHD][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs494982	0.86[CHD][hapmap]
rs524492	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.96[MEX][hapmap];0.92[TSI][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs542444	0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs562016	0.99[ASN][1000 genomes]
rs59945128	0.86[ASN][1000 genomes]
rs608941	0.87[CHD][hapmap]
rs609643	0.84[ASN][1000 genomes]
rs609699	0.84[ASN][1000 genomes]
rs636845	0.87[CHD][hapmap];0.81[YRI][hapmap]
rs66642874	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67597621	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67911131	0.87[ASN][1000 genomes]
rs6904015	0.83[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs6904584	0.89[ASN][1000 genomes]
rs6910294	0.83[JPT][hapmap];0.80[ASN][1000 genomes]
rs6910749	0.81[ASN][1000 genomes]
rs6919161	0.87[CHB][hapmap];0.88[JPT][hapmap];0.87[ASN][1000 genomes]
rs720988	0.98[ASN][1000 genomes]
rs720989	0.96[ASN][1000 genomes]
rs72664272	0.96[ASN][1000 genomes]
rs72664273	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72664274	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7746032	0.86[ASN][1000 genomes]
rs7754378	0.86[CHD][hapmap];0.83[JPT][hapmap]
rs7754698	0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs7769218	0.89[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs929614	0.81[ASN][1000 genomes]
rs9296450	0.86[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.87[TSI][hapmap];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9357459	0.81[ASN][1000 genomes]
rs9357464	0.80[YRI][hapmap]
rs9367211	0.81[CHD][hapmap];0.82[JPT][hapmap]
rs9369512	0.81[ASN][1000 genomes]
rs9369513	0.80[ASN][1000 genomes]
rs9369514	0.83[JPT][hapmap];0.80[ASN][1000 genomes]
rs9369516	0.87[CHD][hapmap];0.83[JPT][hapmap];0.80[ASN][1000 genomes]
rs9395051	0.87[CHD][hapmap];0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs9463017	0.85[ASN][1000 genomes]
rs9463039	0.95[ASN][1000 genomes]
rs9463040	0.95[ASN][1000 genomes]
rs9472331	0.80[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap]
rs9472335	0.85[ASN][1000 genomes]
rs9472407	0.82[JPT][hapmap]
rs9472409	0.87[CHD][hapmap]
rs9472414	0.86[CEU][hapmap];0.94[CHB][hapmap];0.88[JPT][hapmap];0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9885796	0.87[AMR][1000 genomes];0.86[ASN][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs9472376	MED20	cis	parietal	SCAN
rs9472376	SUPT3H	cis	lymphoblastoid	seeQTL
rs9472376	SUPT3H	cis	multi-tissue	Pritchard
rs9472376	UNC5CL	cis	cerebellum	SCAN

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:44791000-44805600	Weak transcription	Ovary	ovary
2	chr6:44792000-44811600	Weak transcription	Pancreas	Pancrea
3	chr6:44796800-44800400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:44797000-44800600	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr6:44798200-44800800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr6:44798200-44811200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr6:44798400-44800800	Weak transcription	GM12878-XiMat	blood
8	chr6:44798400-44822800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr6:44798600-44810600	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr6:44798800-44801200	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr6:44799000-44800400	Enhancers	H1 Cell Line	embryonic stem cell
12	chr6:44799000-44800400	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr6:44799000-44800400	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr6:44799000-44802600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr6:44799200-44800400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr6:44799200-44802000	Enhancers	iPS-20b Cell Line	embryonic stem cell
17	chr6:44799200-44806000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr6:44799400-44801000	Weak transcription	Adipose Nuclei	Adipose
19	chr6:44799600-44801800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr6:44799800-44800400	Enhancers	iPS-15b Cell Line	embryonic stem cell
21	chr6:44799800-44803000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:44800000-44804800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr6:44800200-44800400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
24	chr6:44800200-44801200	Weak transcription	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links