>TACR2|NM_001057|3'UTR
   1 TCCCAATGTGGCAGTGTTGGGAGGTAGGGGTTAGTGGGAGGTGTTTGGGTATTGGGGATGGATCCCTTATGAATAGATTA
  81 ATGCCTTCCAGTTGAAGTGAATCATCACTCTTGTGGGAATGGACTAGTTCCCAAAATAACAAGTTGTTAGAAAGAGTGTG
 161 GTGTCCTCAGTTTCCCTGTCTTGCTTCCTCTCTCACCATGTGATCTCTTTGCACACAACACTTCCCTTCCACTTTCCACC
 241 ATGACAAGAAGCAGCCTGAGGCCTTCACCAGATGCAGCTGCCCAATCTTGGATATTCCAGCCACCAGAATCATGAGCCAA
 321 ATAAACCTCTTTTCTTTATAAATTACCTAGTCTCAGGTATTCCATGAAAGCAACACAAATGGACTGAGATAGGTGCCTAT
 401 TGAACCCTGAAGCCTTGTGCCTGGCTGCAGAATGAGGTGTAGCACCCTTTGAGAAGTAGCCAATCGAGAAGACCACATCT
 481 GAAAGTTCAGCTCATGCCCCATCCTTCAGTATACCAATACAAAGACAACATGGGGCCAGAACTCCAGAAAGGATGCTGAC
 561 TTTAAGAGGACTCAGCCACCCATCTCAGAGAGCACTTCAGAGGATCCAGTAAGGGTCAGAAAAG

ID	Duplex structure	Position	Score	MFE
1	miRNA 3' ucgGUCGG--UU---GAGU-GUC-ACGUCu 5' ||||| |: :||| ||| ||||| Target 5' aagCAGCCTGAGGCCTTCACCAGATGCAGc 3'	249 - 278	130.00	-19.30
2	miRNA 3' ucGGUCGGUUGAGUGUCACGUcu 5' ||| ||| |||| || ||| Target 5' agCCACCCATCTCAGAGAGCAct 3'	574 - 596	129.00	-20.30
3	miRNA 3' ucGGUCGGUUGAGUGUCACGUCu 5' ||| || || | ||| ||| Target 5' gaCCA--CATCTGAAAGTTCAGc 3'	471 - 491	129.00	-9.40

Mutant ID	Mutant Position	Mutant Source
COSN30707767	35	COSMIC
COSN28286805	49	COSMIC
COSN28187504	60	COSMIC
COSN20918783	216	COSMIC
COSN25657517	763	COSMIC

Mutant ID	Mutant Position	Mutant Source
rs1458843700	2	dbSNP
rs753668720	6	dbSNP
rs1220491388	7	dbSNP
rs767626805	10	dbSNP
rs146560837	11	dbSNP
rs962726215	13	dbSNP
rs764043666	22	dbSNP
rs1488307894	24	dbSNP
rs200889575	24	dbSNP
rs1043996371	26	dbSNP
rs775523471	27	dbSNP
rs1010139508	31	dbSNP
rs199971350	32	dbSNP
rs1449242048	34	dbSNP
rs548540679	38	dbSNP
rs1163619948	40	dbSNP
rs763060092	42	dbSNP
rs201825115	49	dbSNP
rs111807567	53	dbSNP
rs200861784	55	dbSNP
rs71471546	58	dbSNP
rs200078878	60	dbSNP
rs201711822	61	dbSNP
rs1382786130	64	dbSNP
rs200551111	68	dbSNP
rs1468858398	72	dbSNP
rs749573416	77	dbSNP
rs372357987	79	dbSNP
rs1232449095	84	dbSNP
rs199834808	86	dbSNP
rs1316139193	88	dbSNP
rs1382428601	90	dbSNP
rs73276842	92	dbSNP
rs200702315	97	dbSNP
rs921353675	98	dbSNP
rs199593831	99	dbSNP
rs1204020933	110	dbSNP
rs1282150554	121	dbSNP
rs1444035826	122	dbSNP
rs746364867	126	dbSNP
rs909759619	127	dbSNP
rs201420195	129	dbSNP
rs775396156	130	dbSNP
rs200539605	140	dbSNP
rs1222465385	143	dbSNP
rs552610747	148	dbSNP
rs1355036311	154	dbSNP
rs774329962	156	dbSNP
rs1158032147	162	dbSNP
rs1383494919	165	dbSNP
rs202218215	166	dbSNP
rs951270387	174	dbSNP
rs1416673245	183	dbSNP
rs917125075	187	dbSNP
rs146376668	200	dbSNP
rs907314170	206	dbSNP
rs1450834037	211	dbSNP
rs958405371	212	dbSNP
rs1034120432	215	dbSNP
rs1311072403	216	dbSNP
rs1335976280	219	dbSNP
rs142381550	220	dbSNP
rs201654005	226	dbSNP
rs772068255	239	dbSNP
rs1277244749	240	dbSNP
rs948588652	243	dbSNP
rs200999758	251	dbSNP
rs781574460	257	dbSNP
rs1204261603	262	dbSNP
rs1022953862	268	dbSNP
rs915822851	272	dbSNP
rs974435386	275	dbSNP
rs188632109	280	dbSNP
rs1419867854	284	dbSNP
rs549939783	285	dbSNP
rs202022406	288	dbSNP
rs1362164427	291	dbSNP
rs1343138355	294	dbSNP
rs892629743	306	dbSNP
rs201113103	313	dbSNP
rs1177801447	314	dbSNP
rs1405975773	324	dbSNP
rs1468631551	338	dbSNP
rs371405746	347	dbSNP
rs200182283	348	dbSNP
rs1333751438	349	dbSNP
rs1301962188	351	dbSNP
rs1390486417	354	dbSNP
rs1326401564	364	dbSNP
rs202040148	365	dbSNP
rs1420290223	366	dbSNP
rs200692896	371	dbSNP
rs998310116	373	dbSNP
rs199932424	378	dbSNP
rs114252762	380	dbSNP
rs200796295	386	dbSNP
rs982458943	390	dbSNP
rs199707776	391	dbSNP
rs75087314	400	dbSNP
rs5030893	401	dbSNP
rs965283388	405	dbSNP
rs199506368	419	dbSNP
rs201238983	427	dbSNP
rs1200226999	430	dbSNP
rs200295118	437	dbSNP
rs1429250806	440	dbSNP
rs752464248	446	dbSNP
rs1479730232	455	dbSNP
rs1173104731	457	dbSNP
rs1374025939	458	dbSNP
rs559109548	462	dbSNP
rs199659561	463	dbSNP
rs1266938514	465	dbSNP
rs138408384	466	dbSNP
rs200554800	468	dbSNP
rs202222538	478	dbSNP
rs893400119	481	dbSNP
rs1488906272	494	dbSNP
rs201075463	517	dbSNP
rs200369757	520	dbSNP
rs1301960182	521	dbSNP
rs146974174	526	dbSNP
rs1401798418	528	dbSNP
rs1296120797	538	dbSNP
rs140331535	552	dbSNP
rs1316660920	553	dbSNP
rs998833801	556	dbSNP
rs199997581	557	dbSNP
rs992638813	563	dbSNP
rs770120184	566	dbSNP
rs117378551	568	dbSNP
rs200894891	571	dbSNP
rs1400008527	576	dbSNP
rs200177527	591	dbSNP
rs202043974	592	dbSNP
rs1262975091	593	dbSNP
rs978560131	613	dbSNP
rs1342305875	614	dbSNP
rs200749998	624	dbSNP
rs199602191	629	dbSNP
rs968789085	630	dbSNP
rs1386754031	634	dbSNP
rs1424922387	635	dbSNP
rs41279668	636	dbSNP
rs1429806039	639	dbSNP
rs200694117	646	dbSNP
rs1454838925	648	dbSNP
rs73274880	651	dbSNP
rs956912707	658	dbSNP
rs201148662	666	dbSNP
rs151221802	669	dbSNP
rs1383192639	672	dbSNP
rs1247031404	673	dbSNP
rs941229764	678	dbSNP
rs1357390368	694	dbSNP
rs1218026799	696	dbSNP
rs11815413	700	dbSNP
rs749485075	703	dbSNP
rs1005674863	710	dbSNP
rs376446753	711	dbSNP
rs933675772	711	dbSNP
rs34908036	718	dbSNP
rs1382988119	719	dbSNP
rs867599737	725	dbSNP
rs1159153806	729	dbSNP
rs1485812886	735	dbSNP
rs963834162	739	dbSNP
rs1238467501	741	dbSNP
rs1338580344	743	dbSNP
rs1047022964	760	dbSNP
rs370190978	761	dbSNP
rs1451581201	770	dbSNP
rs184221638	776	dbSNP
rs77424460	777	dbSNP
rs937140769	781	dbSNP
rs1218732239	782	dbSNP
rs1316350012	794	dbSNP
rs1214320315	796	dbSNP
rs115897351	803	dbSNP
rs41279666	813	dbSNP
rs527995057	819	dbSNP
rs1379803339	821	dbSNP
rs1470951593	828	dbSNP
rs912977994	835	dbSNP
rs988411021	838	dbSNP
rs374586627	841	dbSNP
rs192232685	842	dbSNP
rs545463643	843	dbSNP
rs12244723	855	dbSNP
rs1178524932	860	dbSNP
rs1429878300	867	dbSNP
rs894572702	883	dbSNP
rs976993900	891	dbSNP
rs1334439122	895	dbSNP
rs563329543	896	dbSNP
rs1357697950	899	dbSNP
rs964177496	902	dbSNP
rs543543981	904	dbSNP
rs1018478144	912	dbSNP
rs1466313260	913	dbSNP
rs1374913852	915	dbSNP
rs1006141570	920	dbSNP
rs952786942	923	dbSNP

- Genes & development, 2013

When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.