>HARBI1|NM_173811|3'UTR
   1 TGTAGAAGGTGGAGAGGAGGGATACTTCCCAGGAGTTGTGACAGACTTTCCTCCTCATCACCTTTTACACAGTTCCATCA
  81 TCTAGCATGACTGAGTATACAGATACTTGTCATAAACTGACATTTAATATGTGTGTTTTGGTAAGGTTGGGGCTATGCCA
 161 GAATATCTTGATTCATTTGCATATGCATTAATTAAACTGAAACCAAGACAGCGGCTCCCTACTAAAAAAAAA

ID	Duplex structure	Position	Score	MFE
1	miRNA 3' ucGUUGUGGCGUCGCUGUUcg 5' ||: | |: |:||||: Target 5' ccCAGGA--GTTGTGACAGac 3'	28 - 46	99.00	-8.90
2	miRNA 3' ucGUUGUG---GCGUCGCUGUUCg 5' :||:|: :|: :|::||| Target 5' ttTAATATGTGTGTTTTGGTAAGg 3'	123 - 146	99.00	-7.80
3	miRNA 3' ucGUUGUGG--CGUCGCUG-UUCg 5' || ||:| ||| :||| :|| Target 5' tcCATCATCTAGCA-TGACTGAGt 3'	74 - 96	96.00	-10.70

Mutant ID	Mutant Position	Mutant Source
COSN30172102	30	COSMIC
COSN30143054	104	COSMIC
COSN20439524	137	COSMIC
COSN31603090	184	COSMIC
COSN32132325	434	COSMIC
COSN10087834	526	COSMIC
COSN7009883	583	COSMIC
COSN7009882	584	COSMIC
COSN15788276	652	COSMIC

Mutant ID	Mutant Position	Mutant Source
rs776636016	1	dbSNP
rs768871024	5	dbSNP
rs1409411825	6	dbSNP
rs755986675	11	dbSNP
rs1292630562	16	dbSNP
rs1028917259	20	dbSNP
rs202159962	29	dbSNP
rs1413267064	31	dbSNP
rs770599417	37	dbSNP
rs11038934	45	dbSNP
rs1300422167	50	dbSNP
rs556584273	51	dbSNP
rs1032362382	56	dbSNP
rs1002226534	59	dbSNP
rs1440546696	61	dbSNP
rs1314003052	62	dbSNP
rs905304112	66	dbSNP
rs1366420629	75	dbSNP
rs1242659252	82	dbSNP
rs1265151671	87	dbSNP
rs1354673126	91	dbSNP
rs1219003205	95	dbSNP
rs1320755777	106	dbSNP
rs1260775108	130	dbSNP
rs1487818509	141	dbSNP
rs752403768	151	dbSNP
rs1258149844	152	dbSNP
rs1421583524	165	dbSNP
rs899225475	170	dbSNP
rs1037963684	187	dbSNP
rs545753876	188	dbSNP
rs1342898467	191	dbSNP
rs1359053937	196	dbSNP
rs1399761502	197	dbSNP
rs1303972908	199	dbSNP
rs1381965016	205	dbSNP
rs1046649576	212	dbSNP
rs1414957921	213	dbSNP
rs940524835	214	dbSNP
rs1296458680	216	dbSNP
rs542270082	221	dbSNP
rs1352773931	234	dbSNP
rs1210517133	235	dbSNP
rs12362183	236	dbSNP
rs576847235	239	dbSNP
rs143408296	253	dbSNP
rs1036294747	256	dbSNP
rs926951605	266	dbSNP
rs941653213	268	dbSNP
rs908860839	270	dbSNP
rs1400560489	271	dbSNP
rs1248463679	274	dbSNP
rs1177227905	275	dbSNP
rs781062023	276	dbSNP
rs947142284	281	dbSNP
rs931714280	283	dbSNP
rs371902833	289	dbSNP
rs1377776699	291	dbSNP
rs1449058479	294	dbSNP
rs199911173	304	dbSNP
rs990083909	305	dbSNP
rs1219647038	306	dbSNP
rs1241576856	337	dbSNP
rs1210831388	338	dbSNP
rs977287467	339	dbSNP
rs754667986	346	dbSNP
rs1444207293	347	dbSNP
rs914109747	349	dbSNP
rs762837292	351	dbSNP
rs1277079363	358	dbSNP
rs988368668	359	dbSNP
rs532749217	367	dbSNP
rs1343296303	368	dbSNP
rs187688296	375	dbSNP
rs1478161436	381	dbSNP
rs1002194106	382	dbSNP
rs1358522646	383	dbSNP
rs1192505712	385	dbSNP
rs969874773	386	dbSNP
rs537646720	388	dbSNP
rs569092766	389	dbSNP
rs1359503719	390	dbSNP
rs1028971059	392	dbSNP
rs897676247	394	dbSNP
rs1036221147	395	dbSNP
rs182646019	396	dbSNP
rs1287937395	405	dbSNP
rs1365253589	406	dbSNP
rs1006129506	410	dbSNP
rs996176245	412	dbSNP
rs963827020	413	dbSNP
rs1016344231	417	dbSNP
rs1256877718	418	dbSNP
rs1451638814	424	dbSNP
rs559946083	433	dbSNP
rs1434069539	434	dbSNP
rs1390553283	438	dbSNP
rs1170316261	442	dbSNP
rs1426528204	443	dbSNP
rs1005160260	444	dbSNP
rs1418933498	452	dbSNP
rs1405976282	453	dbSNP
rs1325823471	469	dbSNP
rs540344715	470	dbSNP
rs1404171004	472	dbSNP
rs1056950823	479	dbSNP
rs1342075633	483	dbSNP
rs1398108280	501	dbSNP
rs1277436486	505	dbSNP
rs532118575	511	dbSNP
rs1229502262	520	dbSNP
rs1473791262	529	dbSNP
rs763398613	530	dbSNP
rs566454746	536	dbSNP
rs944178512	540	dbSNP
rs574318580	541	dbSNP
rs1489451074	544	dbSNP
rs988297699	545	dbSNP
rs1242022066	548	dbSNP
rs1473205700	554	dbSNP
rs1165062321	556	dbSNP
rs958274553	561	dbSNP
rs771196591	562	dbSNP
rs1277197117	565	dbSNP
rs1317608237	568	dbSNP
rs1340984608	569	dbSNP
rs1202798243	574	dbSNP
rs1307290167	586	dbSNP
rs1294345091	600	dbSNP
rs190105762	601	dbSNP
rs1240461223	605	dbSNP
rs1287658191	609	dbSNP
rs1356351151	610	dbSNP
rs1214900201	617	dbSNP
rs1284249101	618	dbSNP
rs1443513981	623	dbSNP
rs1190142951	624	dbSNP
rs1235840298	625	dbSNP
rs747263311	626	dbSNP
rs934372282	629	dbSNP
rs1179553507	630	dbSNP
rs1380668493	633	dbSNP
rs969429841	640	dbSNP
rs1417698350	649	dbSNP
rs773539055	650	dbSNP
rs987578208	651	dbSNP
rs1416103876	653	dbSNP
rs187099806	656	dbSNP
rs1309776775	661	dbSNP
rs1446855166	664	dbSNP
rs954982929	665	dbSNP
rs1353732802	667	dbSNP
rs1165730668	668	dbSNP
rs1381653959	669	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.