>DCTN6|NM_006571|3'UTR
   1 GAACAGTGTATAACATGAAGATAACATTTTGTCTTTGACCACTGTCTTTTGAATGGGCCCACAGTGTTTATGTACTCTTA
  81 ACAACTCACAGAATAATACATGTTCACTTTATTTTGTAAAATTGGGTTGAGAGGAAACTAATGGAGTTTCATTGTAACTG
 161 TCCTTTGTAATTTATATAAATGTATTATTTTCCTATATCCTTGGTTCTTTTCTGATAATTTACAGATTTAGCTTTTCTTT
 241 TGTTATATAAACTGCTAGCCACAAATTTTAGTTATGTAAAAGGCTACCCTTGACAAGAAAAGACATACTGTCATGTATTT
 321 ATATTCTAGCATAGACTAAACTGAATAAAAATGCTGATAACAGGACCTTTAGTAAGCATACTTTAATCAGTTTTTCTCCT
 401 TGAATTAATCTTTTCTCTTAATTTTTATTATGTACTAGTTGTATTAAAGCTAATGTGTTTACTTTT

ID	Duplex structure	Position	Score	MFE
1	miRNA 3' uuccUCGUUCCGCCGUA-GAGa 5' ||:|| |||| ||: Target 5' ctttAGTAA----GCATACTTt 3'	367 - 384	99.00	-5.50
2	miRNA 3' uucCUCGUU---CCGCCGUAGAGa 5' ||| || :|| :|:|| Target 5' tgaGAGGAAACTAATGGAGTTTCa 3'	128 - 151	86.00	-9.00
3	miRNA 3' uuccucguuccgccGUAGAGA 5' | |:||| Target 5' ctatatccttggttCTTTTCT 3'	193 - 213	72.00	-5.10

Mutant ID	Mutant Position	Mutant Source
COSM3412969	1	COSMIC
COSN31525792	20	COSMIC
COSN31528728	34	COSMIC
COSN30454543	40	COSMIC
COSN30116944	58	COSMIC
COSN31581116	60	COSMIC
COSN30108786	62	COSMIC
COSN30132370	69	COSMIC
COSN30162767	78	COSMIC
COSN28666104	135	COSMIC
COSN31601398	164	COSMIC
COSN6920773	346	COSMIC
COSN18816047	400	COSMIC

Mutant ID	Mutant Position	Mutant Source
rs1333770349	1	dbSNP
rs766879862	5	dbSNP
rs1280063980	8	dbSNP
rs200863630	9	dbSNP
rs1310620788	10	dbSNP
rs371971868	11	dbSNP
rs766433518	12	dbSNP
rs768192496	13	dbSNP
rs753137193	14	dbSNP
rs760861658	15	dbSNP
rs1417690615	22	dbSNP
rs1420377689	25	dbSNP
rs764035942	26	dbSNP
rs112297965	27	dbSNP
rs754123310	32	dbSNP
rs1176030211	40	dbSNP
rs757357787	48	dbSNP
rs1011337503	54	dbSNP
rs1244198606	60	dbSNP
rs1237863035	71	dbSNP
rs1460226521	78	dbSNP
rs546015805	87	dbSNP
rs537540664	90	dbSNP
rs1216736603	91	dbSNP
rs905131961	98	dbSNP
rs1186076613	100	dbSNP
rs1003374765	101	dbSNP
rs1034883335	103	dbSNP
rs1304951305	125	dbSNP
rs1239408546	135	dbSNP
rs1383454522	142	dbSNP
rs966586560	146	dbSNP
rs3808483	152	dbSNP
rs1401175546	154	dbSNP
rs1158065920	168	dbSNP
rs1406478670	182	dbSNP
rs1157720942	185	dbSNP
rs567949359	194	dbSNP
rs1386418596	201	dbSNP
rs993205160	208	dbSNP
rs1027832719	212	dbSNP
rs1177368301	225	dbSNP
rs936365706	227	dbSNP
rs1054875774	229	dbSNP
rs1375253010	233	dbSNP
rs1486964589	240	dbSNP
rs951734103	240	dbSNP
rs986226106	244	dbSNP
rs916356725	247	dbSNP
rs533864983	255	dbSNP
rs1215989750	257	dbSNP
rs1413250918	274	dbSNP
rs553622133	276	dbSNP
rs1046514943	283	dbSNP
rs1296026731	289	dbSNP
rs964298844	289	dbSNP
rs576642649	301	dbSNP
rs1359450245	305	dbSNP
rs1197361798	307	dbSNP
rs866160006	311	dbSNP
rs139694211	318	dbSNP
rs1424767085	327	dbSNP
rs1366868758	328	dbSNP
rs1049150419	332	dbSNP
rs1423282764	332	dbSNP
rs935521635	335	dbSNP
rs1347859961	340	dbSNP
rs1194363534	348	dbSNP
rs1430595283	367	dbSNP
rs558632646	373	dbSNP
rs1193159083	397	dbSNP
rs1490548759	403	dbSNP
rs1271103249	411	dbSNP
rs1052443227	421	dbSNP
rs1355544479	426	dbSNP
rs149784790	456	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.