pre-miRNA Information
pre-miRNA hsa-mir-216a   
Genomic Coordinates chr2: 55988950 - 55989059
Description Homo sapiens miR-216a stem-loop
Comment This human miRNA was predicted by computational methods using conservation with mouse and Fugu rubripes sequences .
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-216a-5p
Sequence 19| UAAUCUCAGCUGGCAACUGUGA |40
Evidence Experimental
Experiments Cloned
Editing Events in miRNAs
Modification Type Position on miR Chromosome DNA Strand Genomic Position (hg38) List of PMIDs Variant details
A-to-I 15 2 - 55989027 29233923 MiREDiBase
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs757094946 2 dbSNP
rs746980700 8 dbSNP
rs1249388997 12 dbSNP
rs1188616124 15 dbSNP
rs1490501989 19 dbSNP
rs1465789697 20 dbSNP
rs370221981 21 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Biomarker Information
Biomarker ID Name Type Discovered From Mode Level Source Testing Methods
BA0G4V miR-216a Safety Biomarker (SAF) Clinical/Experimental Data Expression Increase Tissue .
BA0G4V miR-216a Safety Biomarker (SAF) Clinical/Experimental Data Expression Increase Plasma MiRNA qPCR analyses
Gene Information
Gene Symbol INO80   
Synonyms INO80A, INOC1, hINO80
Description INO80 complex subunit
Transcript NM_017553   
Expression
Putative miRNA Targets on INO80
3'UTR of INO80
(miRNA target sites are highlighted)
>INO80|NM_017553|3'UTR
   1 CCATCTGGGCCCTCCGACTTCCTTCAACCAAACCAGGGCTAGAGTCCTGACCTGCCAGTGGTCTTTGGATGGCTTGCCCC
  81 GTGCAGCATCTTGCATCCTGAGTCAGAAGTGGAAATGTCCAGCAGGGGAAGGACAGGCAGGTGGATGGTGTGAGCACTTT
 161 TATCATCTGTGTCTCATCAGGAGCATCTGGGGTGCCTGTAGGAGGAAGGCCACAGGGCATGGATCAGCCCCACTGCATCT
 241 CAAGTGAACTGTATAGCCAAGTCTTAAACCTCTCACGGGGCAAGCCTGACACAGACCCCCTTTAGATGCTCAGGCATACT
 321 GTTTCCATCCCGATTCCACTCTTCGGCTCTGACACGTCCCTTGCAAAGTCTCCGCAGGTGCTGTGAAGAGCCTTCCATGG
 401 TAGAGATTTCTCTTAAGAGTGTGATTTCTCATAGGGCTAGTAAGGGAGATTGTATACCTGTTGTCCACAGTCTTCAGGCA
 481 GCTCCCCAGGTCTCTGAACCCCAGAGTGTCATCATTGGAGAGAGCAGTGACTGCGAGAGATGGTGGAGGCCGCTAAGCAT
 561 GGTAGAGGCTAGAGGAAGTCTATCCACAGGCAGTTGTGTTCCCAGCAATTCCTCCCATCCTGCATGGTTCACACCAAGAG
 641 AACCTTCAGATCCTACCAGCAACCGTAGCACCTTCCACCCAGGGGACTCCCAGAAGCCAGTAAAGAGACCAGGAGCCACC
 721 TCAATCAGCAGGACAGCCTCACTGCCCCTCTTGCAGAGTCCCCTTTGCCCATCCTGAATGCACAGTCTCCCTGCTCATGC
 801 CCTTCAGTCCCCTGCTTGGCTGTATGCACTGTCTATATTGCACTGAGAGAGGAAGGGACAGCAGGAGTGAGGTGAAGAGG
 881 GCGGAGAGAGGGGGCAGGCTCGGCACCGGCCCTCCCAGCCCGGCCAGCCTGAGCTTGCTGCCCTCCAGTAGAGACAGAGG
 961 GGCAGTGTTTGCATGGGAGGTGTTTCTGCCTGTCCCTGCCTGATGTCCCTGGTGGAGCAGGTACCTCCGGGCGGGCAAGC
1041 CTCTGATTTGCACACCTGAAAATCGCGGAATTGAGTTTCGATAGATTGATTTTTAAAACTTTTTTGGAGTAGGGGGTATA
1121 GGGGAATCATTTAATTTAAATCATTAAGATTCCCCTGCTCAAACCCAGATTCCTGTGTACAGATGCTATTTAGAGGGAAT
1201 CAGAAAAATGCCAAGCCTTTTCTCTTTGAATGTGCTATTTTTATAACTGAACTTGTACATATGTATAAAGAGAGACACAT
1281 CTTCCTTTTACTAACTGGATAAAAAAATCTTAAATAAAATGGAGTGAGATAATTTTATGTAAAAAAAAAAAAAAAAAAAA
1361 AAAAA
Target sites Provided by authors   Predicted by miRanda    DRVs    SNPs    DRVs & SNPs
miRNA-target interactions
(Predicted by miRanda)
ID Duplex structure Position Score MFE
1
miRNA  3' agugucaaCGGUC-GACUCUAAu 5'
                  ||||| ||||| || 
Target 5' ccagcccgGCCAGCCTGAGCTTg 3'
915 - 937 130.00 -17.10
2
miRNA  3' agUGUC--AACGGU--CGACUCUAAu 5'
            | ||  || |||  |: |||||| 
Target 5' gaAGAGCCTT-CCATGGTAGAGATTt 3'
385 - 409 123.00 -8.50
3
miRNA  3' agUGUCAACGGUCG---ACUCUAAu 5'
            |:||  ||:||:    |||||| 
Target 5' tcATAG-GGCTAGTAAGGGAGATTg 3'
429 - 452 123.00 -17.70
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN31480995 5 COSMIC
COSN30192131 73 COSMIC
COSN20111949 77 COSMIC
COSN26581263 90 COSMIC
COSN26440686 150 COSMIC
COSN16391895 251 COSMIC
COSN27211154 253 COSMIC
COSN27313979 276 COSMIC
COSN29813958 305 COSMIC
COSN31552264 535 COSMIC
COSN30538691 652 COSMIC
COSN31541289 664 COSMIC
COSN31533983 690 COSMIC
COSN28792418 734 COSMIC
COSN31577583 744 COSMIC
COSN17038329 965 COSMIC
COSN26574580 1033 COSMIC
COSN8743982 1072 COSMIC
COSN30028856 1139 COSMIC
COSN31548900 1141 COSMIC
COSN31550966 1148 COSMIC
COSN30175106 1274 COSMIC
rs9796 974 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs977751965 3 dbSNP
rs1477821736 5 dbSNP
rs764667696 6 dbSNP
rs183778624 10 dbSNP
rs1484912056 11 dbSNP
rs1278324645 12 dbSNP
rs775664082 13 dbSNP
rs772091533 14 dbSNP
rs746058502 15 dbSNP
rs375192260 16 dbSNP
rs200587640 27 dbSNP
rs749091379 28 dbSNP
rs777501578 33 dbSNP
rs372166913 34 dbSNP
rs368322933 40 dbSNP
rs998339802 41 dbSNP
rs1385907058 45 dbSNP
rs1416168866 46 dbSNP
rs1394254713 49 dbSNP
rs780725689 50 dbSNP
rs754606380 51 dbSNP
rs965309690 52 dbSNP
rs1015599382 54 dbSNP
rs1004248708 58 dbSNP
rs779106924 59 dbSNP
rs1284774249 63 dbSNP
rs1402607362 66 dbSNP
rs946451509 74 dbSNP
rs888506262 75 dbSNP
rs1048963018 78 dbSNP
rs759691448 79 dbSNP
rs1203896062 80 dbSNP
rs1263176027 80 dbSNP
rs398026985 81 dbSNP
rs557135828 81 dbSNP
rs66470529 81 dbSNP
rs1479120533 82 dbSNP
rs200129129 84 dbSNP
rs1054787549 86 dbSNP
rs1362217006 87 dbSNP
rs1160104620 90 dbSNP
rs1364155360 96 dbSNP
rs937701426 97 dbSNP
rs1455205692 102 dbSNP
rs1156719413 103 dbSNP
rs543212712 104 dbSNP
rs1359866218 105 dbSNP
rs894648468 109 dbSNP
rs1304381879 111 dbSNP
rs575697140 114 dbSNP
rs1057329330 116 dbSNP
rs927886014 122 dbSNP
rs1319095946 123 dbSNP
rs558626447 139 dbSNP
rs924905842 141 dbSNP
rs1162273982 142 dbSNP
rs538690562 143 dbSNP
rs1225380834 150 dbSNP
rs1266775815 152 dbSNP
rs982456808 155 dbSNP
rs1177984453 156 dbSNP
rs929125533 157 dbSNP
rs1252984575 160 dbSNP
rs919101639 163 dbSNP
rs1156572190 170 dbSNP
rs972755358 173 dbSNP
rs989647842 175 dbSNP
rs1165399904 178 dbSNP
rs962768291 183 dbSNP
rs1457025193 184 dbSNP
rs1202487506 187 dbSNP
rs1348994142 190 dbSNP
rs953847157 192 dbSNP
rs376198405 193 dbSNP
rs985457871 194 dbSNP
rs1383990072 196 dbSNP
rs878929674 198 dbSNP
rs1248794100 199 dbSNP
rs1240453434 203 dbSNP
rs954201905 205 dbSNP
rs553282424 208 dbSNP
rs1378448367 211 dbSNP
rs536972433 213 dbSNP
rs1321173153 220 dbSNP
rs1447190476 221 dbSNP
rs147064138 225 dbSNP
rs965279002 226 dbSNP
rs998849618 229 dbSNP
rs1341050776 231 dbSNP
rs1015529178 235 dbSNP
rs551160911 236 dbSNP
rs141637444 240 dbSNP
rs771472661 243 dbSNP
rs1445087466 249 dbSNP
rs1398669262 251 dbSNP
rs571366538 253 dbSNP
rs551491681 254 dbSNP
rs1170489215 262 dbSNP
rs1355783002 263 dbSNP
rs1158220042 269 dbSNP
rs1460091182 271 dbSNP
rs1330334750 272 dbSNP
rs528125662 276 dbSNP
rs749700981 279 dbSNP
rs1055308302 282 dbSNP
rs192434445 297 dbSNP
rs1379030769 300 dbSNP
rs1181889131 302 dbSNP
rs186709943 303 dbSNP
rs778057401 314 dbSNP
rs1213960101 325 dbSNP
rs529198351 325 dbSNP
rs906205293 327 dbSNP
rs1264056351 328 dbSNP
rs1003031482 329 dbSNP
rs1046276948 331 dbSNP
rs539904372 332 dbSNP
rs753009960 336 dbSNP
rs1472391174 337 dbSNP
rs919217648 339 dbSNP
rs1355495701 341 dbSNP
rs1288941194 342 dbSNP
rs945014341 344 dbSNP
rs781546231 345 dbSNP
rs568846351 349 dbSNP
rs577754687 353 dbSNP
rs909945198 355 dbSNP
rs1053478733 360 dbSNP
rs985960013 362 dbSNP
rs76495904 364 dbSNP
rs1030076482 373 dbSNP
rs976818146 374 dbSNP
rs921055402 380 dbSNP
rs1359940361 382 dbSNP
rs545078632 383 dbSNP
rs1218149774 395 dbSNP
rs150344174 397 dbSNP
rs1298621436 406 dbSNP
rs552963574 406 dbSNP
rs1021245569 412 dbSNP
rs1400825452 415 dbSNP
rs766024860 416 dbSNP
rs1162958506 417 dbSNP
rs908437000 419 dbSNP
rs1414655251 420 dbSNP
rs982710886 420 dbSNP
rs1011059879 423 dbSNP
rs952689611 425 dbSNP
rs866813263 426 dbSNP
rs1165486373 428 dbSNP
rs1192253985 436 dbSNP
rs535671209 437 dbSNP
rs1033407271 439 dbSNP
rs1002369551 443 dbSNP
rs1170453208 448 dbSNP
rs536211027 451 dbSNP
rs959036350 455 dbSNP
rs1046487718 468 dbSNP
rs1002972989 469 dbSNP
rs751570514 470 dbSNP
rs1303788886 473 dbSNP
rs1220411800 475 dbSNP
rs1020438694 483 dbSNP
rs1434570844 484 dbSNP
rs1274540335 488 dbSNP
rs552566557 490 dbSNP
rs1224168664 494 dbSNP
rs1286122795 500 dbSNP
rs993158948 503 dbSNP
rs758415868 505 dbSNP
rs1490717127 506 dbSNP
rs1196290180 507 dbSNP
rs1012221174 508 dbSNP
rs574276008 511 dbSNP
rs1179283098 514 dbSNP
rs183047130 515 dbSNP
rs1053853704 522 dbSNP
rs190095758 523 dbSNP
rs1403721969 527 dbSNP
rs1323102573 531 dbSNP
rs571853191 534 dbSNP
rs1040836953 535 dbSNP
rs943826707 536 dbSNP
rs1343448122 540 dbSNP
rs910391133 550 dbSNP
rs761287386 551 dbSNP
rs185631841 552 dbSNP
rs1292482701 554 dbSNP
rs1436090469 564 dbSNP
rs932725119 566 dbSNP
rs140410830 572 dbSNP
rs1325690522 582 dbSNP
rs1438000371 583 dbSNP
rs180781964 587 dbSNP
rs1423460342 588 dbSNP
rs1236723276 589 dbSNP
rs1172015615 604 dbSNP
rs966723389 605 dbSNP
rs991865952 615 dbSNP
rs958751559 619 dbSNP
rs914133559 620 dbSNP
rs1387674599 621 dbSNP
rs989744885 624 dbSNP
rs1472113609 634 dbSNP
rs1035707406 635 dbSNP
rs981478518 636 dbSNP
rs188261145 638 dbSNP
rs967458895 638 dbSNP
rs1190244877 640 dbSNP
rs1445839682 641 dbSNP
rs1315610439 642 dbSNP
rs151226229 643 dbSNP
rs958159054 650 dbSNP
rs528879425 654 dbSNP
rs1220069260 655 dbSNP
rs776068623 656 dbSNP
rs533192828 664 dbSNP
rs7175464 665 dbSNP
rs1441130166 668 dbSNP
rs1187466459 681 dbSNP
rs148612890 683 dbSNP
rs993107888 685 dbSNP
rs1168768951 696 dbSNP
rs1423233742 698 dbSNP
rs1029248098 700 dbSNP
rs7175438 703 dbSNP
rs1200482327 705 dbSNP
rs1321122691 707 dbSNP
rs762460839 709 dbSNP
rs1037545803 710 dbSNP
rs1333490010 713 dbSNP
rs1040764267 714 dbSNP
rs943751491 720 dbSNP
rs1006094802 722 dbSNP
rs760178880 724 dbSNP
rs1258064429 729 dbSNP
rs143650842 732 dbSNP
rs796262229 732 dbSNP
rs889076102 738 dbSNP
rs186168133 745 dbSNP
rs1399684771 750 dbSNP
rs1489295501 750 dbSNP
rs991434043 751 dbSNP
rs1332574110 752 dbSNP
rs573007362 753 dbSNP
rs553251827 755 dbSNP
rs928620781 759 dbSNP
rs1379153293 762 dbSNP
rs1175873831 763 dbSNP
rs1464396556 766 dbSNP
rs1171893202 770 dbSNP
rs1401788549 771 dbSNP
rs981445691 771 dbSNP
rs922659889 772 dbSNP
rs1295743896 773 dbSNP
rs967426038 779 dbSNP
rs1041167993 781 dbSNP
rs1438490647 783 dbSNP
rs1233037353 785 dbSNP
rs1238308458 785 dbSNP
rs1261714657 786 dbSNP
rs1356411989 790 dbSNP
rs1215106341 793 dbSNP
rs181962382 796 dbSNP
rs1183407572 798 dbSNP
rs1193109958 801 dbSNP
rs1200426634 805 dbSNP
rs913912770 809 dbSNP
rs896122872 810 dbSNP
rs989692912 810 dbSNP
rs1364175788 814 dbSNP
rs957580447 816 dbSNP
rs543052926 817 dbSNP
rs1029632532 820 dbSNP
rs1359334932 826 dbSNP
rs573940575 835 dbSNP
rs1294891327 839 dbSNP
rs1365006164 847 dbSNP
rs1313742569 848 dbSNP
rs1280946366 850 dbSNP
rs926931192 851 dbSNP
rs1379582317 852 dbSNP
rs796602818 857 dbSNP
rs966308958 857 dbSNP
rs1310126859 861 dbSNP
rs1449645410 865 dbSNP
rs1377701924 867 dbSNP
rs981336389 874 dbSNP
rs535015798 882 dbSNP
rs753643275 883 dbSNP
rs373011813 891 dbSNP
rs748816357 891 dbSNP
rs1379659751 895 dbSNP
rs993213704 896 dbSNP
rs543736173 897 dbSNP
rs961648909 899 dbSNP
rs556123253 900 dbSNP
rs537941840 901 dbSNP
rs796534459 902 dbSNP
rs1180036408 905 dbSNP
rs1457040182 907 dbSNP
rs1421559627 915 dbSNP
rs1402896230 918 dbSNP
rs1255301936 921 dbSNP
rs190666856 922 dbSNP
rs749876436 927 dbSNP
rs997733967 930 dbSNP
rs901690479 934 dbSNP
rs1041117789 941 dbSNP
rs1228411450 942 dbSNP
rs146410853 943 dbSNP
rs372622105 948 dbSNP
rs1196485434 949 dbSNP
rs1242330519 951 dbSNP
rs1053781888 955 dbSNP
rs1312574174 957 dbSNP
rs957717595 959 dbSNP
rs1381756194 960 dbSNP
rs922107305 961 dbSNP
rs1170926889 962 dbSNP
rs975358261 963 dbSNP
rs1463752909 965 dbSNP
rs1331028838 972 dbSNP
rs9796 974 dbSNP
rs12907665 980 dbSNP
rs1301664328 981 dbSNP
rs1378502112 982 dbSNP
rs549724265 988 dbSNP
rs533075637 989 dbSNP
rs1382887123 992 dbSNP
rs184977146 993 dbSNP
rs113083678 995 dbSNP
rs1455896375 1003 dbSNP
rs1218268429 1018 dbSNP
rs968837086 1023 dbSNP
rs1367403040 1024 dbSNP
rs1257119304 1025 dbSNP
rs547189872 1028 dbSNP
rs918086782 1029 dbSNP
rs995248279 1032 dbSNP
rs781028135 1033 dbSNP
rs1193690988 1035 dbSNP
rs961759458 1038 dbSNP
rs1260759472 1040 dbSNP
rs1015995951 1041 dbSNP
rs1169601875 1048 dbSNP
rs898279179 1053 dbSNP
rs755237376 1054 dbSNP
rs1192742181 1056 dbSNP
rs548325133 1064 dbSNP
rs953090968 1065 dbSNP
rs866357082 1066 dbSNP
rs74601039 1067 dbSNP
rs907088345 1075 dbSNP
rs1229903717 1076 dbSNP
rs1284237284 1078 dbSNP
rs1045639817 1079 dbSNP
rs997451902 1080 dbSNP
rs946023588 1083 dbSNP
rs192327784 1085 dbSNP
rs1324091872 1087 dbSNP
rs913220348 1088 dbSNP
rs1218336104 1089 dbSNP
rs1217248804 1092 dbSNP
rs1287532965 1095 dbSNP
rs1341552721 1095 dbSNP
rs1246966354 1096 dbSNP
rs542738626 1097 dbSNP
rs1010107478 1102 dbSNP
rs936100276 1102 dbSNP
rs1384764116 1106 dbSNP
rs1358690804 1111 dbSNP
rs922044793 1112 dbSNP
rs573828893 1115 dbSNP
rs892543850 1119 dbSNP
rs1324422022 1121 dbSNP
rs974874492 1124 dbSNP
rs944859343 1125 dbSNP
rs912126062 1127 dbSNP
rs1293675365 1135 dbSNP
rs775802633 1140 dbSNP
rs983689331 1140 dbSNP
rs1053898024 1144 dbSNP
rs1421318570 1145 dbSNP
rs1215211202 1147 dbSNP
rs779962250 1147 dbSNP
rs1452916494 1152 dbSNP
rs529314300 1153 dbSNP
rs951057258 1154 dbSNP
rs1218936409 1166 dbSNP
rs1246486494 1167 dbSNP
rs1441860332 1171 dbSNP
rs1440763038 1172 dbSNP
rs1181031774 1173 dbSNP
rs1439659762 1180 dbSNP
rs144066616 1183 dbSNP
rs1416053357 1188 dbSNP
rs1045683661 1192 dbSNP
rs949657032 1197 dbSNP
rs1323206602 1205 dbSNP
rs918201243 1206 dbSNP
rs1425571124 1209 dbSNP
rs555394048 1211 dbSNP
rs1447295548 1216 dbSNP
rs765180582 1217 dbSNP
rs1034515155 1218 dbSNP
rs1266750643 1218 dbSNP
rs529906325 1220 dbSNP
rs1210453702 1222 dbSNP
rs759829889 1222 dbSNP
rs1001298011 1233 dbSNP
rs1469884462 1233 dbSNP
rs907057326 1237 dbSNP
rs1236740726 1238 dbSNP
rs908941209 1243 dbSNP
rs1457656155 1249 dbSNP
rs1188928317 1252 dbSNP
rs1239270236 1255 dbSNP
rs984569453 1257 dbSNP
rs752899655 1261 dbSNP
rs765585479 1262 dbSNP
rs757144619 1265 dbSNP
rs542467022 1268 dbSNP
rs1467410164 1270 dbSNP
rs976193404 1271 dbSNP
rs1198594013 1272 dbSNP
rs1397864163 1274 dbSNP
rs1390735368 1275 dbSNP
rs1334827526 1276 dbSNP
rs1319006243 1280 dbSNP
rs1445232483 1281 dbSNP
rs1292155434 1292 dbSNP
rs1491415558 1297 dbSNP
rs891748556 1298 dbSNP
rs1330211124 1301 dbSNP
rs1054454241 1307 dbSNP
rs1201498467 1308 dbSNP
rs759888353 1308 dbSNP
rs1441217617 1314 dbSNP
rs900547257 1314 dbSNP
rs1397539018 1319 dbSNP
rs542275070 1320 dbSNP
rs1326064409 1321 dbSNP
rs188627851 1321 dbSNP
rs1421200142 1324 dbSNP
rs753925625 1329 dbSNP
rs1173065912 1333 dbSNP
rs1466114768 1337 dbSNP
rs1402192786 1339 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HEK293S
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... HITS-CLIP data was present in GSM1084044. RNA binding protein: AGO2. Condition:CLIP_noarsenite_rep3 HITS-CLIP data was present in GSM1084045. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep3 HITS-CLIP data was present in GSM1084073. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep1_AbnovaAb ...

- Karginov FV; Hannon GJ, 2013, Genes & development.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' agUGUC-AACG---GUCGACUCUAAu 5'
            | || ||||    |||||||||| 
Target 5' -cAGAGCUUGCAGUGAGCUGAGAUU- 3'
1 - 24
Article - Karginov FV; Hannon GJ
- 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.
LinkOut: [PMID: 23824327]
CLIP-seq Support 1 for dataset GSM1084044
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_noarsenite_rep3
Location of target site ENST00000361937.3 | 3UTR | CAGAGCUUGCAGUGAGCUGAGAUUGCGCCACU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM1084045
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_arsenite_rep3
Location of target site ENST00000361937.3 | 3UTR | AGGAGAAUGGCAUGAACCCGGGAGGCAGAGCUUGCAGUGAGCUGAGAUUGCGCCACUGCACUCC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM1084073
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_hippuristanol_rep1_AbnovaAb
Location of target site ENST00000361937.3 | 3UTR | CAGAGCUUGCAGUGAGCUGAGAUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
MiRNA-Target Expression Profile
Dataset Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
GSE28260 Renal cortex and medulla 0.628 1.1e-2 0.543 2.8e-2 13 Click to see details
GSE32688 Pancreatic cancer -0.396 1.2e-2 -0.445 5.4e-3 32 Click to see details
GSE27834 Pluripotent stem cells 0.499 2.5e-2 0.371 7.9e-2 16 Click to see details
GSE28544 Breast cancer 0.392 2.9e-2 0.435 1.7e-2 24 Click to see details
GSE34608 Pulmonary tuberculosis and sarcoidosis 0.381 4.9e-2 0.202 2.0e-1 20 Click to see details
GSE19350 CNS germ cell tumors -0.445 7.4e-2 0.019 4.8e-1 12 Click to see details
GSE26953 Aortic valvular endothelial cells 0.195 1.8e-1 0.085 3.5e-1 24 Click to see details
GSE21849 B cell lymphoma 0.113 2.8e-1 -0.058 3.8e-1 29 Click to see details
GSE14794 Lymphoblastoid cells -0.061 2.8e-1 0.082 2.2e-1 90 Click to see details
GSE42095 Differentiated embryonic stem cells 0.097 3.3e-1 0.090 3.4e-1 23 Click to see details
GSE35602 Colorectal cancer stromal tissue 0.031 4.4e-1 0.502 5.3e-3 25 Click to see details
GSE21687 Ependynoma primary tumors 0.016 4.5e-1 -0.156 1.1e-1 64 Click to see details
GSE38226 Liver fibrosis 0.017 4.7e-1 0.173 2.3e-1 21 Click to see details
GSE38974 Chronic obstructive pulmonary disease -0.013 4.8e-1 -0.171 2.1e-1 25 Click to see details
GSE17306 Multiple myeloma -0.006 4.8e-1 0.366 4.9e-3 49 Click to see details
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
BLCA -0.552 0.05 -0.370 0.15 10 Click to see details
LUSC -0.346 0.07 -0.254 0.14 20 Click to see details
PRAD 0.231 0.11 0.223 0.11 31 Click to see details
UCEC -0.402 0.12 -0.430 0.11 10 Click to see details
ESCA 0.683 0.16 0.600 0.2 4 Click to see details
STAD -0.226 0.17 -0.218 0.18 20 Click to see details
CHOL -0.354 0.19 -0.452 0.13 8 Click to see details
BRCA 0.148 0.24 0.071 0.37 25 Click to see details
PAAD -0.508 0.25 -0.400 0.3 4 Click to see details
KIRP -0.171 0.25 -0.267 0.14 18 Click to see details
LUAD -0.237 0.27 -0.267 0.24 9 Click to see details
KIRC -0.085 0.33 -0.115 0.28 29 Click to see details
HNSC 0.096 0.33 0.084 0.35 23 Click to see details
THCA -0.04 0.39 0.003 0.49 47 Click to see details
LIHC -0.033 0.41 -0.071 0.32 45 Click to see details
KICH -0.004 0.5 -0.182 0.3 11 Click to see details
KICH -0.004 0.5 -0.182 0.3 11 Click to see details
KICH -0.004 0.5 -0.182 0.3 11 Click to see details
148 hsa-miR-216a-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT000534 PTEN phosphatase and tensin homolog 4 3
MIRT005018 SIRT1 sirtuin 1 3 1
MIRT005964 CDC42 cell division cycle 42 2 1
MIRT005969 CD44 CD44 molecule (Indian blood group) 2 1
MIRT007154 SMAD7 SMAD family member 7 1 1
MIRT054887 BECN1 beclin 1 5 3
MIRT067588 METAP2 methionyl aminopeptidase 2 2 6
MIRT099144 MYLIP myosin regulatory light chain interacting protein 2 12
MIRT162313 TGFBR2 transforming growth factor beta receptor 2 2 2
MIRT230668 DFFA DNA fragmentation factor subunit alpha 2 2
MIRT256274 PHAX phosphorylated adaptor for RNA export 2 2
MIRT386817 RAD51L3-RFFL RAD51L3-RFFL readthrough 2 2
MIRT386825 RFFL ring finger and FYVE like domain containing E3 ubiquitin protein ligase 2 2
MIRT438816 HNF4A hepatocyte nuclear factor 4 alpha 1 1
MIRT464699 UBE2V1 ubiquitin conjugating enzyme E2 V1 2 2
MIRT465962 TMEM189-UBE2V1 TMEM189-UBE2V1 readthrough 2 2
MIRT466046 TMEM189 transmembrane protein 189 2 2
MIRT466482 TECPR2 tectonin beta-propeller repeat containing 2 2 7
MIRT472209 NGFRAP1 brain expressed X-linked 3 2 4
MIRT472562 NACC1 nucleus accumbens associated 1 2 4
MIRT478921 CPS1 carbamoyl-phosphate synthase 1 2 2
MIRT480121 CALR calreticulin 2 2
MIRT497754 OXGR1 oxoglutarate receptor 1 2 2
MIRT497967 TWISTNB TWIST neighbor 2 2
MIRT502882 CDK4 cyclin dependent kinase 4 2 8
MIRT510191 MON1B MON1 homolog B, secretory trafficking associated 2 4
MIRT512407 CD84 CD84 molecule 2 2
MIRT513739 PSD3 pleckstrin and Sec7 domain containing 3 2 4
MIRT526257 DROSHA drosha ribonuclease III 2 2
MIRT528968 FAM19A3 family with sequence similarity 19 member A3, C-C motif chemokine like 2 2
MIRT529599 C6orf132 chromosome 6 open reading frame 132 2 2
MIRT529776 ZNF486 zinc finger protein 486 2 2
MIRT530110 PSAPL1 prosaposin like 1 (gene/pseudogene) 2 2
MIRT530504 FADS6 fatty acid desaturase 6 2 2
MIRT531437 PAK1 p21 (RAC1) activated kinase 1 2 2
MIRT534445 SDR16C5 short chain dehydrogenase/reductase family 16C member 5 2 2
MIRT537286 GABPB1 GA binding protein transcription factor beta subunit 1 2 2
MIRT538451 CNNM2 cyclin and CBS domain divalent metal cation transport mediator 2 2 2
MIRT543085 ACTB actin beta 2 2
MIRT550982 ZNF254 zinc finger protein 254 2 2
MIRT556259 MAPRE2 microtubule associated protein RP/EB family member 2 2 2
MIRT556639 LAMC1 laminin subunit gamma 1 2 2
MIRT559127 C11orf57 chromosome 11 open reading frame 57 2 2
MIRT561405 TUBB2A tubulin beta 2A class IIa 2 2
MIRT569677 SEC23B Sec23 homolog B, coat complex II component 2 4
MIRT574660 KLHL15 kelch like family member 15 2 2
MIRT575030 Tecpr2 tectonin beta-propeller repeat containing 2 2 5
MIRT617683 JRKL JRK like 2 2
MIRT618540 SEMA5A semaphorin 5A 2 2
MIRT620805 C1orf27 chromosome 1 open reading frame 27 2 2
MIRT621569 ZBTB7A zinc finger and BTB domain containing 7A 2 2
MIRT622133 SP4 Sp4 transcription factor 2 2
MIRT624913 CTCFL CCCTC-binding factor like 2 2
MIRT625010 PAK4 p21 (RAC1) activated kinase 4 2 2
MIRT626644 ZNF551 zinc finger protein 551 2 2
MIRT626646 ATP5A1 ATP synthase, H+ transporting, mitochondrial F1 complex, alpha subunit 1, cardiac muscle 2 2
MIRT626672 NOM1 nucleolar protein with MIF4G domain 1 2 2
MIRT627945 NNT nicotinamide nucleotide transhydrogenase 2 2
MIRT627963 NLK nemo like kinase 2 2
MIRT628767 SRSF7 serine and arginine rich splicing factor 7 2 2
MIRT629261 KDM2B lysine demethylase 2B 2 2
MIRT629422 ADM2 adrenomedullin 2 2 2
MIRT630238 SORD sorbitol dehydrogenase 2 2
MIRT631272 CENPM centromere protein M 2 4
MIRT631793 CLK4 CDC like kinase 4 2 2
MIRT632058 ATF7IP activating transcription factor 7 interacting protein 2 2
MIRT632485 RPS15A ribosomal protein S15a 2 2
MIRT632611 PDP2 pyruvate dehyrogenase phosphatase catalytic subunit 2 2 2
MIRT632708 MTA3 metastasis associated 1 family member 3 2 2
MIRT632815 INO80 INO80 complex subunit 2 2
MIRT635956 PLA2G12A phospholipase A2 group XIIA 2 2
MIRT636152 UBXN2A UBX domain protein 2A 2 2
MIRT636899 C5orf45 MRN complex interacting protein 2 4
MIRT636930 AGAP9 ArfGAP with GTPase domain, ankyrin repeat and PH domain 9 2 2
MIRT637457 ZNF324B zinc finger protein 324B 2 2
MIRT637900 SLC19A3 solute carrier family 19 member 3 2 2
MIRT639826 ZNF638 zinc finger protein 638 2 2
MIRT640445 ERVMER34-1 endogenous retrovirus group MER34 member 1, envelope 2 2
MIRT640681 ARSK arylsulfatase family member K 2 2
MIRT641611 CAPN7 calpain 7 2 2
MIRT641676 AKR7A2 aldo-keto reductase family 7 member A2 2 2
MIRT646786 IL23R interleukin 23 receptor 2 2
MIRT648352 A2ML1 alpha-2-macroglobulin like 1 2 2
MIRT649144 SPATA5 spermatogenesis associated 5 2 2
MIRT649254 TRIM65 tripartite motif containing 65 2 2
MIRT652491 TMEM178B transmembrane protein 178B 2 2
MIRT653308 SMU1 DNA replication regulator and spliceosomal factor 2 2
MIRT653945 SEPSECS Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase 2 2
MIRT654212 RNF19B ring finger protein 19B 2 2
MIRT654839 PPM1L protein phosphatase, Mg2+/Mn2+ dependent 1L 2 2
MIRT655159 PHF21A PHD finger protein 21A 2 2
MIRT655316 PDCD11 programmed cell death 11 2 2
MIRT655375 PAX3 paired box 3 2 2
MIRT657301 HOXB5 homeobox B5 2 2
MIRT657593 GRIN2A glutamate ionotropic receptor NMDA type subunit 2A 2 2
MIRT658460 FAM117B family with sequence similarity 117 member B 2 2
MIRT658716 ELOVL4 ELOVL fatty acid elongase 4 2 2
MIRT661640 UGT2B28 UDP glucuronosyltransferase family 2 member B28 2 2
MIRT661712 MTO1 mitochondrial tRNA translation optimization 1 2 4
MIRT661833 ZNF793 zinc finger protein 793 2 2
MIRT663805 BET1L Bet1 golgi vesicular membrane trafficking protein like 2 2
MIRT663884 CXorf56 chromosome X open reading frame 56 2 2
MIRT664672 L2HGDH L-2-hydroxyglutarate dehydrogenase 2 2
MIRT665814 TMEM168 transmembrane protein 168 2 2
MIRT668159 GDE1 glycerophosphodiester phosphodiesterase 1 2 2
MIRT668430 FAM20B FAM20B, glycosaminoglycan xylosylkinase 2 2
MIRT672306 GP2 glycoprotein 2 2 2
MIRT673101 SYNPO2L synaptopodin 2 like 2 2
MIRT673437 APAF1 apoptotic peptidase activating factor 1 2 2
MIRT673584 KDELC2 KDEL motif containing 2 2 2
MIRT673718 SLU7 SLU7 homolog, splicing factor 2 2
MIRT673777 MRPL17 mitochondrial ribosomal protein L17 2 2
MIRT674316 IMP4 IMP4, U3 small nucleolar ribonucleoprotein 2 2
MIRT674820 FAM229B family with sequence similarity 229 member B 2 2
MIRT675179 BPTF bromodomain PHD finger transcription factor 2 2
MIRT675586 WWC1 WW and C2 domain containing 1 2 2
MIRT675812 MED28 mediator complex subunit 28 2 2
MIRT677632 ALG1 ALG1, chitobiosyldiphosphodolichol beta-mannosyltransferase 2 2
MIRT683914 PSMB9 proteasome subunit beta 9 2 2
MIRT687135 QPCTL glutaminyl-peptide cyclotransferase like 2 2
MIRT691973 PLCXD1 phosphatidylinositol specific phospholipase C X domain containing 1 2 2
MIRT693078 AS3MT arsenite methyltransferase 2 2
MIRT694084 RNASEH2B ribonuclease H2 subunit B 2 2
MIRT696292 IER3IP1 immediate early response 3 interacting protein 1 2 2
MIRT696541 C3 complement C3 2 2
MIRT701955 MITF melanogenesis associated transcription factor 2 2
MIRT703276 GNG12 G protein subunit gamma 12 2 2
MIRT706852 DNAJB13 DnaJ heat shock protein family (Hsp40) member B13 2 2
MIRT706993 XPO5 exportin 5 2 2
MIRT710716 KRTAP6-1 keratin associated protein 6-1 2 2
MIRT711305 ACOX1 acyl-CoA oxidase 1 2 2
MIRT711514 ESCO1 establishment of sister chromatid cohesion N-acetyltransferase 1 2 2
MIRT711648 LIPG lipase G, endothelial type 2 2
MIRT711772 CCDC59 coiled-coil domain containing 59 2 2
MIRT714280 COQ7 coenzyme Q7, hydroxylase 2 2
MIRT715048 PRPF38A pre-mRNA processing factor 38A 2 2
MIRT716934 INCENP inner centromere protein 2 2
MIRT717220 OTUD3 OTU deubiquitinase 3 2 2
MIRT717865 BICD2 BICD cargo adaptor 2 2 2
MIRT718836 SNX20 sorting nexin 20 2 2
MIRT720243 GPBP1 GC-rich promoter binding protein 1 2 2
MIRT721969 MCM8 minichromosome maintenance 8 homologous recombination repair factor 2 2
MIRT724000 LMTK2 lemur tyrosine kinase 2 2 2
MIRT725193 SDAD1 SDA1 domain containing 1 2 2
MIRT731669 CBL Cbl proto-oncogene 3 1
MIRT732776 AQP4 aquaporin 4 3 0
MIRT733158 ITGA5 integrin subunit alpha 5 1 0
MIRT735623 TLR4 toll like receptor 4 4 0
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-216a Curcumin NULL 969516 Quantitative real-time PCR Y79 RB cells. 22510010 2012 down-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-216a Cisplatin 5460033 NSC119875 approved resistant cell line (CIS)
hsa-miR-216a-5p Cisplatin 5460033 NSC119875 approved resistant High Ovarian Cancer cell line (SKOV3, 2008, OVCAR10, OVCAR3, HeLa, MCF7, MDA-MB-468)
hsa-miR-216a-5p Doxorubicin 31703 NSC123127 approved resistant High Breast Cancer cell line (MCF-7)
hsa-miR-216a-5p Verapamil 2520 NSC272366 approved resistant High Breast Cancer cell line (MCF-7)
hsa-miR-216a-5p Doxorubicin 31703 NSC123127 approved sensitive High Small Cell Lung Cancer cell line (NCI-H69)
hsa-miR-216a-5p Sorafenib 216239 NSC747971 approved resistant Low Hepatocellular Carcinoma tissue and cell line (HepG2, Hep3B, Huh-7, PLC/PRF/5, HCCLM3, Bel-7404, HLE, SK-HEP-1, SNU-449)
hsa-miR-216a-5p Fluorouracil 3385 NSC19893 approved resistant High Colorectal Cancer tissue
hsa-miR-216a-5p Oxaliplatin 6857599 NSC266046 approved resistant High Colorectal Cancer tissue
hsa-miR-216a-5p Sorafenib 216239 NSC747971 approved resistant High Hepatocellular Carcinoma cell line (Huh-7)
hsa-miR-216a-5p Doxorubicin 31703 NSC123127 approved resistant Low Small Cell Lung Cancer cell line (H69, H446)
hsa-miR-216a-5p Cisplatin 5460033 NSC119875 approved resistant Low Ovarian Cancer cell line (SKOV3, OVCA433)
hsa-miR-216a-5p Oxaliplatin 6857599 NSC266046 approved resistant Low Gastric Cancer cell line (MGC, SGC)
hsa-miR-216a-5p Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)
hsa-miR-216a-5p Osimertinib 71496458 NSC779217 approved sensitive cell line (HCC827)
hsa-miR-216a-5p Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)
hsa-miR-216a-5p Vemurafenib 42611257 NSC761431 approved sensitive cell line (LM16)
hsa-miR-216a-5p Vemurafenib 42611257 NSC761431 approved resistant cell line (LM11)
hsa-miR-216a-5p Vemurafenib 42611257 NSC761431 approved sensitive cell line (LM17)
hsa-miR-216a-5p Vemurafenib 42611257 NSC761431 approved resistant cell line (LM47)
hsa-miR-216a-5p Vemurafenib 42611257 NSC761431 approved resistant cell line (LM43)
hsa-miR-216a-5p Exemestane 60198 NSC713563 approved sensitive cell line (MCF-7)
hsa-miR-216a-5p Testosterone+Tamoxifen sensitive cell line (MCF-7)
hsa-miR-216a-5p Cisplatin 5460033 NSC119875 approved resistant cell line (RPMI2650)
hsa-miR-216a-5p Tamoxifen 2733525 NSC180973 approved sensitive cell line (TamR8)
hsa-miR-216a-5p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)

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