CHAT

Basic Information

Gene Symbol	CHAT
Entrez Id	1103
Position	chr10:50817141..50873150
Description	choline O-acetyltransferase
Gene type	protein-coding

SNP Information

SNP	Position	Alelle	Gene	Annotation	Info	Or	Se	P-value	eQTL	Score^*
rs10082479	10:50829219	A/T	CHAT	intron	0.907	1.00381	0.0167	0.8219		5
rs10508915	10:50849534	A/G	CHAT	intron	0.959	1.00833	0.0156	0.5941		7
rs10776584	10:50836732	C/G	CHAT	intron	0.923	0.99471	0.0113	0.6394		5
rs10776585	10:50858186	T/C	CHAT	intron	0.995	0.98728	0.0106	0.2262		4
rs10776586	10:50858346	T/C	CHAT	intron	0.993	1.01258	0.0106	0.2374		5
rs10857517	10:50821834	T/G	CHAT	intron,near-gene-5	0.972	0.98069	0.0276	0.4793		5
rs10857518	10:50826862	C/G	CHAT	intron	0.903	0.97151	0.0248	0.2446		6
rs10857519	10:50828064	A/C	CHAT	intron	0.905	1.02102	0.0178	0.2431		4
rs10857520	10:50842024	T/C	CHAT	intron	0.992	1.00020	0.0106	0.9869		5
rs10857521	10:50860229	C/G	CHAT	intron	0.932	0.98857	0.0122	0.3465		5
rs10857522	10:50862335	C/G	CHAT	intron	0.976	0.98837	0.0107	0.2745		7
rs10857523	10:50865571	A/G	CHAT	intron	0.991	1.01167	0.0106	0.2765		5
rs10857524	10:50868443	A/G	CHAT	intron	0.970	0.98817	0.0141	0.3993		6
rs10857526	10:50869583	A/C	CHAT	intron	0.993	0.98738	0.0106	0.232		5
rs10857527	10:50870519	T/C	CHAT	intron	0.993	1.01329	0.0106	0.2145		7
rs10857528	10:50872246	A/G	CHAT	intron	0.989	1.03510	0.0175	0.04861		4
rs11101182	10:50824244	A/C	CHAT	intron	0.947	0.98167	0.0176	0.2924		3a
rs11101183	10:50825162	T/C	CHAT	intron	0.913	1.01025	0.0163	0.53		5
rs11101184	10:50825191	T/C	CHAT	intron	0.928	1.02480	0.0280	0.3814		5
rs11101186	10:50832277	T/C	CHAT	intron	0.965	0.99820	0.0109	0.8661		7
rs11101189	10:50843036	T/C	CHAT	intron	0.976	0.99960	0.0186	0.9832		7
rs11101190	10:50846882	A/C	CHAT	intron	0.967	0.98975	0.0244	0.6742		6
rs11101191	10:50853192	T/C	CHAT	intron	0.995	0.99382	0.0181	0.7302		5
rs11101193	10:50856138	T/G	CHAT	intron	0.958	0.98787	0.0112	0.2757		4
rs11101197	10:50858046	A/C	CHAT	intron	0.966	1.01217	0.0108	0.2619		3a
rs11101198	10:50868725	A/C	CHAT	intron	0.970	1.01187	0.0141	0.4047		5
rs11101200	10:50870500	A/G	CHAT	intron	0.991	1.00100	0.0107	0.9224		6
rs11101202	10:50872402	C/G	CHAT	intron	0.988	1.01379	0.0107	0.1998		4
rs112123054	10:50829430	A/T	CHAT	intron	0.859	0.99740	0.0345	0.9408		5
rs115136176	10:50850860	T/C	CHAT	intron	0.926	0.95925	0.0345	0.2277		7
rs116112180	10:50850050	A/G	CHAT	intron	0.926	1.04258	0.0345	0.2269		5
rs117026197	10:50850240	T/C	CHAT	intron	0.926	0.95916	0.0345	0.227		7
rs117134741	10:50847228	A/C	CHAT	intron	0.924	1.04279	0.0346	0.225		7
rs117173631	10:50832806	A/G	CHAT	intron	0.626	1.02685	0.0635	0.6765		6
rs117452304	10:50847836	T/G	CHAT	intron	0.918	0.96108	0.0328	0.2258		6
rs117804645	10:50839184	T/C	CHAT	intron	0.777	0.95916	0.0265	0.116		5
rs12217567	10:50839403	A/G	CHAT	intron	0.899	0.99193	0.0118	0.4902		4
rs12220022	10:50839567	T/C	CHAT	intron	0.785	1.03769	0.0339	0.2752		5
rs12246528	10:50835264	A/G	CHAT	intron	0.993	0.99750	0.0114	0.8285		5
rs12249242	10:50847062	A/G	CHAT	intron	0.991	1.00531	0.0181	0.7677		6
rs12264845	10:50863083	A/C	CHAT	intron	0.986	1.01238	0.0107	0.2511		5
rs12266458	10:50847997	T/C	CHAT	intron	0.993	1.00552	0.0181	0.7621		7
rs12356649	10:50850921	A/G	CHAT	intron	0.957	1.00924	0.0156	0.5564		7
rs12358003	10:50850719	C/G	CHAT	intron	0.957	0.99074	0.0156	0.5498		7
rs12358284	10:50869162	T/C	CHAT	intron	0.988	1.03967	0.0181	0.03151		7
rs12359885	10:50865975	A/G	CHAT	intron	0.968	0.98817	0.0141	0.3982		5
rs12762683	10:50832102	A/C	CHAT	intron	0.943	0.99581	0.0142	0.7668		7
rs12782820	10:50843108	A/T	CHAT	intron	0.969	1.00270	0.0180	0.8802		7
rs137995641	10:50868183	A/G	CHAT	intron	0.841	0.93876	0.0479	0.1875		-
rs143533005	10:50828882	T/C	CHAT	intron	0.745	0.87197	0.0555	0.01347		-
rs144487052	10:50848552	A/G	CHAT	intron	0.862	1.05686	0.0442	0.2103		-
rs144802194	10:50861844	T/C	CHAT	intron	0.661	0.93314	0.0572	0.2262		-
rs145476125	10:50828962	A/C	CHAT	intron	0.826	1.08383	0.0414	0.05204		-
rs150496555	10:50837841	T/G	CHAT	intron	0.857	1.09417	0.0402	0.0251		-
rs151239898	10:50873482	T/C	CHAT	near-gene-3	0.769	1.15824	0.0654	0.02463		-
rs17775704	10:50857114	A/G	CHAT	intron	0.937	1.01359	0.0156	0.3847		5
rs17775758	10:50872352	C/G	CHAT	intron	0.874	0.94516	0.0358	0.1146		3a
rs17784350	10:50842264	A/G	CHAT	intron	0.973	1.00975	0.0249	0.6976		5
rs2140404	10:50866432	A/G	CHAT	intron	0.786	0.98521	0.0588	0.7998		7
rs2177369	10:50843729	A/G	CHAT	intron	0.961	0.98797	0.0111	0.2763		6
rs2177370	10:50838874	A/G	CHAT	intron	0.872	0.98728	0.0117	0.2752		5
rs2377871	10:50854483	A/G	CHAT	intron	0.967	1.01898	0.0246	0.4448		5
rs2377872	10:50850781	A/G	CHAT	intron	0.993	0.99960	0.0184	0.9832		7
rs2377873	10:50850754	A/C	CHAT	intron	0.979	1.01339	0.0163	0.4146		6
rs2377875	10:50840661	A/C	CHAT	intron	0.784	1.07530	0.0553	0.1893		5
rs2377877	10:50836466	T/C	CHAT	intron	0.885	0.99302	0.0234	0.765		5
rs2377878	10:50829485	A/T	CHAT	intron	0.838	0.97229	0.0308	0.3615		5
rs2889758	10:50843857	T/C	CHAT	intron	0.967	1.01440	0.0111	0.1984		7
rs2889759	10:50829893	T/G	CHAT	intron	0.816	1.01694	0.0296	0.57		5
rs2889760	10:50829613	A/G	CHAT	intron	0.774	1.00934	0.0410	0.8204		5
rs34210537	10:50851911	A/C	CHAT	intron	0.970	1.00030	0.0254	0.9894		5
rs34488451	10:50845057	A/G	CHAT	intron	0.982	1.00030	0.0185	0.9882		7
rs3793789	10:50825781	C/G	CHAT	intron	0.937	1.01816	0.0177	0.3072		5
rs3793790	10:50840736	A/G	CHAT	intron	0.843	1.00351	0.0124	0.7775		6
rs3793791	10:50841704	T/C	CHAT	intron	1.000	0.98393	0.0199	0.4156		2b
rs3793792	10:50850163	A/G	CHAT	intron	0.979	0.98768	0.0110	0.2617		6
rs3793797	10:50857849	T/C	CHAT	intron	0.943	1.00884	0.0138	0.5232		5
rs3793798	10:50871466	A/T	CHAT	intron	0.988	0.98334	0.0107	0.1144		6
rs3810946	10:50815803	A/G	CHAT	near-gene-5	0.984	0.98699	0.0203	0.5212		5
rs3810950	10:50824619	A/G	CHAT	missense	0.947	0.99025	0.0127	0.4391		2b
rs3810951	10:50835967	A/C	CHAT	intron	0.827	0.98482	0.0311	0.6232		5
rs3829172	10:50854197	A/G	CHAT	intron	0.986	1.00632	0.0181	0.7298		2b
rs41306415	10:50824106	T/C	CHAT	intron,missense,untranslated-5	0.843	1.02840	0.0541	0.6054		5
rs41306828	10:50828719	T/C	CHAT	intron	0.873	0.96831	0.0467	0.491		7
rs4615945	10:50829480	A/G	CHAT	intron	0.851	1.02092	0.0213	0.3302		5
rs4838391	10:50832109	T/C	CHAT	intron	0.895	1.01248	0.0229	0.5899		7
rs4838392	10:50834978	A/G	CHAT	intron	0.966	1.00743	0.0109	0.4931		1f
rs4838393	10:50864903	A/G	CHAT	intron	0.991	0.98857	0.0107	0.2804		5
rs4838394	10:50865231	A/G	CHAT	intron	0.991	1.01167	0.0106	0.2764		5
rs4838395	10:50867825	A/T	CHAT	intron	0.923	1.03894	0.0172	0.0258		6
rs4838533	10:50825318	T/C	CHAT	intron	0.901	0.98295	0.0114	0.1329		5
rs4838534	10:50825931	C/G	CHAT	intron	0.912	0.97307	0.0247	0.2694		5
rs4838536	10:50826598	A/G	CHAT	intron	0.911	0.97951	0.0279	0.4584		7
rs4838537	10:50827721	T/C	CHAT	intron	0.900	1.01654	0.0281	0.5578		4
rs4838541	10:50852183	T/C	CHAT	intron	0.975	1.00642	0.0107	0.5502		7
rs4838543	10:50853343	T/C	CHAT	intron	0.964	1.01278	0.0112	0.2561		7
rs4838546	10:50860744	T/C	CHAT	intron	0.948	0.99094	0.0109	0.4005		4
rs4838547	10:50862404	T/C	CHAT	intron	0.977	1.01177	0.0107	0.276		7
rs4838548	10:50862770	T/G	CHAT	intron	0.981	0.98807	0.0107	0.2622		5
rs4838549	10:50864692	A/G	CHAT	intron	0.991	0.98857	0.0107	0.2799		7
rs61849363	10:50851104	T/C	CHAT	intron	0.957	1.00944	0.0156	0.5448		7
rs61849365	10:50867565	A/G	CHAT	intron	0.978	1.00582	0.0123	0.6361		6
rs61849366	10:50867857	A/G	CHAT	intron	0.978	1.00592	0.0123	0.631		7
rs6537543	10:50859103	A/C	CHAT	intron	0.983	1.01126	0.0107	0.294		2b
rs6537544	10:50859245	A/G	CHAT	intron	0.987	1.01207	0.0106	0.2597		4
rs6537545	10:50859249	A/G	CHAT	intron	0.987	1.01207	0.0106	0.2573		4
rs6537546	10:50864043	A/T	CHAT	intron	0.990	0.96764	0.0175	0.06032		6
rs6537547	10:50867444	A/C	CHAT	intron	0.987	1.01298	0.0107	0.2263		6
rs7067651	10:50815696	A/G	CHAT	near-gene-5	0.951	0.99124	0.0138	0.5236		5
rs7076082	10:50860235	A/G	CHAT	intron	0.972	1.01278	0.0107	0.2345		5
rs7076926	10:50863565	T/C	CHAT	intron	0.990	0.96773	0.0175	0.0614		5
rs7081647	10:50865227	T/G	CHAT	intron	0.990	0.99940	0.0107	0.9534		5
rs7091005	10:50826163	A/G	CHAT	intron	0.949	0.99223	0.0191	0.684		2b
rs72795714	10:50842583	T/C	CHAT	intron	0.922	0.99531	0.0195	0.8113		7
rs72795715	10:50842584	C/G	CHAT	intron	0.932	1.00260	0.0193	0.8944		7
rs72795718	10:50852064	T/G	CHAT	intron	0.756	1.03987	0.0430	0.3634		6
rs72795726	10:50871492	T/C	CHAT	intron	0.934	0.92026	0.0494	0.09239		7
rs75287762	10:50815871	T/C	CHAT	near-gene-5	0.951	1.00481	0.0195	0.8032		5
rs76773576	10:50858687	T/C	CHAT	intron	0.772	1.01806	0.0288	0.533		4
rs76830700	10:50844207	T/C	CHAT	intron	0.817	1.03293	0.0364	0.374		6
rs76881621	10:50846276	T/C	CHAT	intron	0.901	0.96242	0.0343	0.2643		7
rs80097077	10:50863188	A/G	CHAT	missense	0.779	0.95571	0.0580	0.4346		7
rs8178984	10:50822016	C/G	CHAT	intron,near-gene-5	0.934	1.00763	0.0165	0.6443		5
rs8178985	10:50822985	A/G	CHAT	intron	0.841	1.04185	0.0198	0.03811		5
rs8178986	10:50823830	A/G	CHAT	intron	0.945	0.98236	0.0176	0.3111		2b
rs8178987	10:50823981	T/C	CHAT	intron	0.945	0.98216	0.0176	0.3063		3a
rs8178988	10:50824038	T/C	CHAT	intron	0.931	0.97844	0.0158	0.1658		2b
rs8178990	10:50830171	T/C	CHAT	missense	0.930	0.97113	0.0220	0.1845		4
rs8178991	10:50854637	A/G	CHAT	missense	0.855	1.05749	0.0443	0.2075		3a
rs8178992	10:50863147	T/C	CHAT	coding-synon	0.988	1.03252	0.0175	0.0675		7
rs868750	10:50833839	A/G	CHAT	intron	0.963	1.00270	0.0141	0.8487		5
rs885834	10:50815512	A/G	CHAT	near-gene-5	0.981	0.98768	0.0110	0.2607		5
SNP	Position	Alelle	Gene	Annotation	Info	Or	Se	P-value	eQTL	Score^*

Note: RegulomeDB score^*

score	supporting data	score	supporting data
1a	eQTL + TF binding + matched TF motif + matched DNase Footprint + DNase peak	6	other
2a	TF binding + matched TF motif + matched DNase Footprint + DNase peak	5	TF binding or DNase peak
1b	eQTL + TF binding + any motif + DNase Footprint + DNase peak	4	TF binding + DNase peak
2b	TF binding + any motif + DNase Footprint + DNase peak	3b	TF binding + matched TF motif
1c	eQTL + TF binding + matched TF motif + DNase peak	1f	eQTL + TF binding / DNase peak
2c	TF binding + matched TF motif + DNase peak	3a	TF binding + any motif + DNase peak
1d	eQTL + TF binding + any motif + DNase peak	1e	eQTL + TF binding + matched TF motif

CNV Information

The gene is not affected by CNV!

eQTL Information