Variant report

Variant	rs3799976
Chromosome Location	chr6:44835622-44835623
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 225 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:225)

rs_ID	r²[population]
rs1023090	0.90[CHB][hapmap];0.95[JPT][hapmap]
rs1023091	0.81[CHB][hapmap];0.83[JPT][hapmap]
rs1028944	0.83[JPT][hapmap]
rs1041332	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs1041333	0.87[ASN][1000 genomes]
rs10456119	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10484627	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10948176	1.00[YRI][hapmap]
rs10948183	0.95[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs10948185	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10948186	1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs10948187	0.95[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs10948188	0.81[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.89[ASN][1000 genomes]
rs10948190	0.95[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs10948192	1.00[CEU][hapmap];0.91[YRI][hapmap];0.86[EUR][1000 genomes]
rs10948193	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10948194	0.95[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs10948197	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10948198	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs1150806	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11524119	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1159131	0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs11967188	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12190136	0.83[ASN][1000 genomes]
rs12190513	1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs12191518	0.94[ASN][1000 genomes]
rs12192367	0.89[CHB][hapmap]
rs12196818	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12197442	0.86[ASN][1000 genomes]
rs12198904	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12200412	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12205071	0.84[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap]
rs12207620	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12208023	0.84[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap]
rs12208339	0.83[ASN][1000 genomes]
rs12209076	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12214778	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12215263	1.00[YRI][hapmap]
rs12524069	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12525009	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12525773	0.82[ASN][1000 genomes]
rs12526711	0.94[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12526755	0.83[ASN][1000 genomes]
rs12527908	0.86[ASN][1000 genomes]
rs12528232	0.83[JPT][hapmap]
rs12528762	0.81[CHB][hapmap];0.84[JPT][hapmap]
rs12529490	0.84[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap]
rs12529522	0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs12530016	0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs12661902	0.81[ASN][1000 genomes]
rs12663530	0.83[ASN][1000 genomes]
rs12663798	0.83[ASN][1000 genomes]
rs1293457	0.83[ASN][1000 genomes]
rs1293467	0.83[ASN][1000 genomes]
rs1293598	0.95[ASN][1000 genomes]
rs1293600	0.90[ASN][1000 genomes]
rs13196587	0.90[ASN][1000 genomes]
rs13199289	0.90[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs13201942	0.83[JPT][hapmap]
rs13202529	0.82[ASN][1000 genomes]
rs13202672	0.81[ASN][1000 genomes]
rs13203495	0.88[ASN][1000 genomes]
rs13205113	0.81[CHB][hapmap];0.84[JPT][hapmap]
rs13206526	0.83[JPT][hapmap]
rs13209827	0.81[CHB][hapmap];0.84[JPT][hapmap]
rs13211006	0.83[JPT][hapmap]
rs13211229	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13213412	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13215618	0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs13216116	1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs13216967	0.81[ASN][1000 genomes]
rs1329710	1.00[CHB][hapmap];0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs1329713	0.95[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs1329714	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[YRI][hapmap];0.83[ASN][1000 genomes]
rs1329715	0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs1329716	0.95[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs1360195	0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs1360197	1.00[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs1402599	0.83[JPT][hapmap]
rs1521355	1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1557143	0.83[ASN][1000 genomes]
rs1576382	0.87[ASN][1000 genomes]
rs1578676	0.94[ASN][1000 genomes]
rs1590864	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16869119	0.84[JPT][hapmap];0.80[ASN][1000 genomes]
rs17339124	0.90[ASN][1000 genomes]
rs17422760	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17424547	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1831310	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1854547	0.89[ASN][1000 genomes]
rs1891411	0.83[ASN][1000 genomes]
rs1891412	0.83[ASN][1000 genomes]
rs1935551	0.82[ASN][1000 genomes]
rs1971482	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[YRI][hapmap];0.83[ASN][1000 genomes]
rs1980265	0.95[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs2139863	0.84[JPT][hapmap];0.80[ASN][1000 genomes]
rs2186062	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs227849	0.89[CHB][hapmap]
rs2396369	1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs2396370	0.89[ASN][1000 genomes]
rs2396371	0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs2396372	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2396375	0.81[ASN][1000 genomes]
rs34243039	0.83[ASN][1000 genomes]
rs34286542	0.82[ASN][1000 genomes]
rs34776198	0.80[ASN][1000 genomes]
rs34808716	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34982599	0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35103634	0.83[ASN][1000 genomes]
rs35357222	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35687006	0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs35704584	0.83[ASN][1000 genomes]
rs35813980	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35856781	0.83[ASN][1000 genomes]
rs35908738	0.82[ASN][1000 genomes]
rs36105034	0.82[ASN][1000 genomes]
rs3778507	0.95[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs3799965	0.83[JPT][hapmap];0.80[ASN][1000 genomes]
rs3799967	0.94[CHB][hapmap];0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs3799968	0.89[CHB][hapmap]
rs3799969	0.80[ASN][1000 genomes]
rs3799970	0.80[ASN][1000 genomes]
rs3799971	0.90[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs3799972	0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs3799973	0.82[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs3799974	0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs3799977	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3799979	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3799981	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs3799984	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs3799986	1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs3799987	0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs3823252	0.83[JPT][hapmap];0.80[ASN][1000 genomes]
rs3846896	0.98[ASN][1000 genomes]
rs3957281	0.96[ASN][1000 genomes]
rs4398713	1.00[CHB][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs4412189	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs4475320	0.83[ASN][1000 genomes]
rs4512220	0.81[CHB][hapmap];0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs4711799	0.83[ASN][1000 genomes]
rs4711803	0.98[ASN][1000 genomes]
rs4711805	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4711807	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4711809	0.89[CHB][hapmap]
rs4714821	0.82[ASN][1000 genomes]
rs4714827	0.83[ASN][1000 genomes]
rs4714828	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4714829	0.83[ASN][1000 genomes]
rs4714830	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4714832	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4714834	0.83[JPT][hapmap]
rs4714836	0.84[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap]
rs472672	0.90[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs472673	0.90[ASN][1000 genomes]
rs494982	0.95[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs500773	0.85[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs524492	0.83[JPT][hapmap]
rs538801	1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs542444	0.83[JPT][hapmap];0.80[ASN][1000 genomes]
rs55893720	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs567054	0.88[ASN][1000 genomes]
rs588848	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs59945128	0.83[ASN][1000 genomes]
rs608941	1.00[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs62438007	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62438011	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs636845	0.95[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs6458414	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6458415	0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs67001335	0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs67911131	0.84[ASN][1000 genomes]
rs679713	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6903576	0.94[ASN][1000 genomes]
rs6904015	0.90[CHB][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs6904584	0.86[ASN][1000 genomes]
rs6910294	0.95[CHB][hapmap];0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs6910749	0.83[ASN][1000 genomes]
rs6919161	0.80[CHB][hapmap];0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs6919485	0.88[ASN][1000 genomes]
rs6923519	0.95[ASN][1000 genomes]
rs6924185	0.92[YRI][hapmap]
rs6925017	1.00[CHB][hapmap];0.88[JPT][hapmap];0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6925467	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs718112	0.97[ASN][1000 genomes]
rs720988	0.80[ASN][1000 genomes]
rs7742360	1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs7745506	0.83[JPT][hapmap]
rs7747642	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7749865	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7754378	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7754698	0.89[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs7763421	0.84[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs7763450	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs7769218	0.82[JPT][hapmap];0.80[ASN][1000 genomes]
rs7775717	1.00[CHB][hapmap];0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs929614	0.83[ASN][1000 genomes]
rs9296448	0.82[ASN][1000 genomes]
rs9296450	0.80[ASN][1000 genomes]
rs9357459	0.83[ASN][1000 genomes]
rs9357464	1.00[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs9367208	0.90[ASN][1000 genomes]
rs9367210	1.00[YRI][hapmap]
rs9367211	0.89[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9367214	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs9369512	0.83[ASN][1000 genomes]
rs9369513	0.82[ASN][1000 genomes]
rs9369514	0.89[CHB][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs9369516	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9369529	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs9395049	0.95[CHB][hapmap];0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs9395051	0.89[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs9395055	0.94[ASN][1000 genomes]
rs9395058	0.80[ASN][1000 genomes]
rs9463054	0.88[ASN][1000 genomes]
rs9463055	0.87[ASN][1000 genomes]
rs9472376	0.83[JPT][hapmap]
rs9472383	0.86[ASN][1000 genomes]
rs9472407	0.95[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs9472409	0.95[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs9472411	0.90[ASN][1000 genomes]
rs9472414	0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs9472416	0.95[CHB][hapmap];0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs969211	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs976699	0.95[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs9885796	0.81[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3799976	SUPT3H	cis	multi-tissue	Pritchard
rs3799976	SUPT3H	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:44823800-44836600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr6:44828400-44837800	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr6:44833600-44849400	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr6:44833800-44836400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr6:44834000-44836200	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr6:44834200-44836200	Weak transcription	Fetal Intestine Large	intestine
7	chr6:44834600-44836600	Weak transcription	Fetal Intestine Small	intestine
8	chr6:44834800-44836200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr6:44835200-44836000	Enhancers	GM12878-XiMat	blood
10	chr6:44835200-44837200	Enhancers	Primary B cells from peripheral blood	blood

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