miRTarBase - #MIRT456413


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pre-miRNA Information
pre-miRNA hsa-mir-3529   
Genomic Coordinates chr15: 88611847 - 88611924
Description Homo sapiens miR-3529 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3529-5p
Sequence 10| AGGUAGACUGGGAUUUGUUGUU |31
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs747160976 1 dbSNP
rs777738449 2 dbSNP
rs1421978871 4 dbSNP
rs1167726772 6 dbSNP
rs1355306872 6 dbSNP
rs1286285953 7 dbSNP
rs1233166293 8 dbSNP
rs772151253 9 dbSNP
rs1204890571 13 dbSNP
rs1250455629 18 dbSNP
rs748388180 19 dbSNP
rs1303070972 21 dbSNP
Putative Targets

Gene Information
Gene Symbol MTRF1L   
Synonyms HMRF1L, MRF1L, mtRF1a
Description mitochondrial translational release factor 1 like
Transcript NM_001114184   
Other Transcripts NM_019041   
Expression
Putative miRNA Targets on MTRF1L
3'UTR of MTRF1L
(miRNA target sites are highlighted)		 
>MTRF1L|NM_001114184|3'UTR
   1 AGGAAGATCAGAGAAAATAAGAACATATAATTTTCCACAGAACCGGGTCACAGATCACAGAATAAACAAGACGCTGCATG
  81 ATCTTGAAACTTTTATGCAAGGAGATTATCTACTGGATGAACTTGTACAGTCATTGAAGGAATACGCCGATTATGAATCT
 161 TTAGTAGAAATTATTTCCCAAAAAGTTTAAGTTGATTTGTTATTTATAGACTTTCGTAGCTTAGAAAAATTCTACAGTAC
 241 ATCCACATAGGGTGAAAGTACCCTTACTCTCTTGAAAAACGTTGAGTTAACACAGTTGGAGGTAATATGCATATTCTGAA
 321 GTCATAGATAATTTACACAGATCTCTCTCAATGCATTAGCAAAAATCATACAATATACAGATGGTCCTCGATTTACATTG
 401 TGGTTAATTCCCAATAAACCCATCATAAGTTAAAAATGCATATAACGTTAGCAACACAGCAGTCTCCTAATTAATGACAG
 481 CTTGACTTAACAATTTTCCAACTTTACCATGGTGTGAAAGAGGTATGATTCCTAAGCCCTAAGGAGCTCCTCAGCTTGAA
 561 ATGGGGCTGCATCCCTATAAACCCATCATAAAGTCAAAAAATCCTAAAACATAAGTTGGTGACCATCTGTAATCATGATG
 641 TGGTGGTAAATCTTGGACGCTACCTTACAATAACTAGACAAAGGAAAATCATCCTTTGTCCTGTTCTGTGTAAATATTTA
 721 ATGAATGATCAAAACTTCAGTTTAAATATTATGAAAAACTTTAAACATAAAGTAGTAGAAATAAGACAGTAAATACTGTA
 801 TCCTAATATCCAGTCAGGATACAGAAACCATACCATTAACTTGAACAGGGATAATTTTAATATAAAAACTGTTAACTGAT
 881 AATGGTATTAACTTTTAAGAGGGATGAAAGAGAGCTATGATGTCCTAGGACTGAGAGTACCCCAGGAAAGAATACCCTTG
 961 AAAGGGTCTCCCCTTCCCCATGGTGAAGTCAGGCCTAATGGAGAGAGTGGCTACAGCCTACTCAGTGATTGGGAAATTCC
1041 CTGTCTTGCCCTGGGCCAGAGCTGGTGTACCGCTGGTGGATCAGGTCTTACAAGCAAAGAACCTCACACTCCCAACTGGT
1121 AAGCCAGAAGCCTCTTGCTAGGGTGTGAGCAAAACTTGGACAGGAACTCTCAGTAGATGTTTGTGTTTGTCAAGATTCTC
1201 CAGACAAACTTCCTTAAAAGGATTGGCTTGTGTTGTTATTATTAAGTCTAACAAGTCCAAAAGCTGGAGTGTGAGGCAGG
1281 AGGCTGGAAACCCAGGAAAGCTGATGGTGCAAGGTCCAGTCCAAAGGTATCTGTTGGAGGATTCTCTTGTTCTGGGAAGA
1361 GGACGGTCTTTTTTTCTCTTCAGACCTTCACCTGACTGGATCAAGCCCACTAACATCGAGGAGGACAGTCTGCATTACTC
1441 AGAGTTCACTGATTGATTTAAATGTCAATCTCATATAAAACACCCTCACAGAAACACCTAGAATAATGTTTGACCTTATA
1521 ATTGGAAAATCAGAGCAAAAGTTAAATCTCAAAAAAAAAAAAAAAAAAAGTATGACCCAGTAGCTAGGCACCTGTGGCCC
1601 CGCCAAGTTGACACATAAAATTAACTGTCACAGTATCATCTTAGAAGTGAAAGAAGCCCCTTTATCCTGCAGTGCCCCTC
1681 TACCACCACCTACTGACAAAGAACATGGTGCTATCTGGCATGGGAGAAATGTTCAGTTTGCTATGGCTTGTATGTGTCCC
1761 CTCAAATTCAAGTGTTGCCAATGTGACAGCATCAAGAGGTGGGGTCTTTAAGAGATCACTAGGCCATGAGGGATTCTCTT
1841 AGGACTGGGATGAAGGCCCATAATAAAAGAGGTTTCGGGGAGCATCCTGCTAGCTTGCCTTCTGTATGTGAGAACACAGC
1921 AAGAAAGCCCTAGTCAACAAGTGCCAGCTCCTTGATCTTAGACTTCCCATCCTCCAGAACTGTGAGAAATACATTTCTGT
2001 TCCTTACAAATTACCCAGTCTCCTGTATTCTGTTATAGCAGCACAAAATGAAGATACCATACCTGAACACCTGAACATTC
2081 TTCACAAGGTAGTAAATGCACTGCTTTATTCTGGTCTCAGTATTGTGTGCTTAATAAGGAAATGAGAAAGGGTGGATCAG
2161 GGCATAGGATGAACAAGTTACTGCTAGACCTCTCACAATGCCACTAATGGATAAGATTGTATTTTCATCATTCTTGTCTC
2241 TTCGGAAGCTAACACCATGCTATAATAGGCACTAAATAGATGTCTAAAAACACCTTAAGTATTTGTCTAGAAATCTGGTG
2321 CATTGTTCAGAAAGAACCAAAATTCAAAATAATTTCAAAGGGCCTAAAGCACTAGTTAATCAAAATTCATTAGTTTTTAA
2401 TGGTACTACCACTCTCAAATTTAAAATGTCATCTTACGTTCCTCTTCCTCGCATTGGATTTATTGCTAAAACCTGGTAAA
2481 CACTTTTAATCCTTTTCAATTCCATTACCACTGCTCTTGTCCAGAATTACTTCGCAGACTAATAGTCACCTGACTTCTCC
2561 CCTGCATCCGATTTGCTGTCTAATTCTGGTTACAAATAAGTAACTGCCAAACTAATCTTTCTAAAAAGCAAGACTGATCT
2641 CGTCACTCCTTTGCTCAACAATGTAAAAGCTCCCATTGTCTCCCAAATAAAACCAGCTTTCCACTGTGTATACAATACAA
2721 AAAAAAAAAAAA
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' uuGUUGUUUAGGGU--CAGAUGGa 5'
            :|| |: |||||  |||| || 
Target 5' tgTAAAAGCTCCCATTGTCTCCCa 3'
 2662 - 2685 134.00 -11.70
2 
miRNA  3' uuguUGUUUA--GGGUCAGAUGGa 5'
              ||||||  |||||||| |: 
Target 5' ccttACAAATTACCCAGTCTCCTg 3'
 2002 - 2025 132.00 -20.80
3 
miRNA  3' uuGUUGUUUAGGG-UCAGAUGga 5'
            ||| ||| ||| |||| ||  
Target 5' agCAAGAAAGCCCTAGTCAACaa 3'
 1918 - 1940 124.00 -14.80
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSM7592759 13 COSMIC
COSM9723243 13 COSMIC
COSM8845361 22 COSMIC
COSM6846243 36 COSMIC
COSM262083 37 COSMIC
COSM9510269 38 COSMIC
COSM3697616 45 COSMIC
COSM9019929 53 COSMIC
COSM5730044 60 COSMIC
COSM1441698 73 COSMIC
COSM9626975 76 COSMIC
COSM8947460 108 COSMIC
COSM740354 136 COSMIC
COSM8973261 136 COSMIC
COSM3859783 138 COSMIC
COSM1075181 145 COSMIC
COSM4703668 146 COSMIC
COSM4459122 159 COSMIC
COSM8192754 167 COSMIC
COSM8311186 167 COSMIC
COSM6716955 190 COSMIC
COSN30135277 224 COSMIC
COSN32112168 224 COSMIC
COSN16128435 232 COSMIC
COSN23016711 282 COSMIC
COSN15127317 316 COSMIC
COSN1327108 319 COSMIC
COSN30529227 356 COSMIC
COSN17426838 1001 COSMIC
COSN20561341 1059 COSMIC
COSN6309230 2527 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs745661552 2 dbSNP
rs151055997 9 dbSNP
rs1329748071 20 dbSNP
rs201452521 21 dbSNP
rs777235446 24 dbSNP
rs1357054952 25 dbSNP
rs757937919 26 dbSNP
rs1429575292 27 dbSNP
rs1342967274 28 dbSNP
rs766785939 30 dbSNP
rs1457267496 31 dbSNP
rs1187198158 35 dbSNP
rs1394438230 35 dbSNP
rs201682355 39 dbSNP
rs1476400619 40 dbSNP
rs1414964827 41 dbSNP
rs142813473 42 dbSNP
rs756437015 43 dbSNP
rs1243961715 44 dbSNP
rs1216613841 45 dbSNP
rs750746290 53 dbSNP
rs767980441 55 dbSNP
rs762100385 56 dbSNP
rs1336746414 59 dbSNP
rs1191194262 62 dbSNP
rs1313122485 68 dbSNP
rs751869718 72 dbSNP
rs1478546013 73 dbSNP
rs1187626790 74 dbSNP
rs1170908377 75 dbSNP
rs148517090 78 dbSNP
rs763146230 82 dbSNP
rs1463821605 86 dbSNP
rs1435197858 90 dbSNP
rs145697730 92 dbSNP
rs1324542783 93 dbSNP
rs762415089 97 dbSNP
rs769616447 101 dbSNP
rs568513948 102 dbSNP
rs1273062354 109 dbSNP
rs1185561769 113 dbSNP
rs1408521748 115 dbSNP
rs1220580697 116 dbSNP
rs1421952806 123 dbSNP
rs776268361 127 dbSNP
rs774943067 130 dbSNP
rs770754126 131 dbSNP
rs746629052 134 dbSNP
rs1489410443 138 dbSNP
rs371671714 141 dbSNP
rs367616411 145 dbSNP
rs550359476 146 dbSNP
rs1292466499 147 dbSNP
rs1452607845 148 dbSNP
rs4034612 149 dbSNP
rs1245520747 150 dbSNP
rs778549296 154 dbSNP
rs756562358 155 dbSNP
rs531847441 159 dbSNP
rs1443823384 162 dbSNP
rs1193779418 163 dbSNP
rs781659799 171 dbSNP
rs757727586 173 dbSNP
rs1440476843 174 dbSNP
rs751782367 176 dbSNP
rs1422396773 177 dbSNP
rs1169529308 178 dbSNP
rs764423680 179 dbSNP
rs763021372 184 dbSNP
rs1414233166 188 dbSNP
rs769203506 189 dbSNP
rs201908588 191 dbSNP
rs763373765 191 dbSNP
rs775047239 191 dbSNP
rs1404598806 192 dbSNP
rs1321468871 194 dbSNP
rs376204459 194 dbSNP
rs769468551 194 dbSNP
rs752708062 196 dbSNP
rs745466093 202 dbSNP
rs765409877 207 dbSNP
rs780716106 208 dbSNP
rs776663628 214 dbSNP
rs770668095 215 dbSNP
rs760481747 216 dbSNP
rs3860814 219 dbSNP
rs771710906 220 dbSNP
rs747889559 224 dbSNP
rs778262574 226 dbSNP
rs768248381 228 dbSNP
rs200437226 235 dbSNP
rs1306934360 237 dbSNP
rs888231197 239 dbSNP
rs372766575 240 dbSNP
rs1295244984 243 dbSNP
rs1228139822 245 dbSNP
rs1227610253 247 dbSNP
rs1216610872 248 dbSNP
rs561834166 248 dbSNP
rs1297471783 250 dbSNP
rs1384124930 252 dbSNP
rs772562547 271 dbSNP
rs1487054058 280 dbSNP
rs1028219606 281 dbSNP
rs1237728585 283 dbSNP
rs368338572 284 dbSNP
rs552731560 288 dbSNP
rs1161261584 289 dbSNP
rs1382027440 289 dbSNP
rs1420227385 289 dbSNP
rs1158035547 290 dbSNP
rs1359958087 291 dbSNP
rs995006576 294 dbSNP
rs527668515 302 dbSNP
rs1341319902 303 dbSNP
rs71575951 316 dbSNP
rs560494793 325 dbSNP
rs1167218509 336 dbSNP
rs542119781 337 dbSNP
rs1475377091 339 dbSNP
rs1373938756 341 dbSNP
rs1347879449 346 dbSNP
rs1201701526 349 dbSNP
rs1278822414 350 dbSNP
rs900755999 364 dbSNP
rs1185053162 365 dbSNP
rs1174729459 367 dbSNP
rs1039227785 371 dbSNP
rs1009107847 376 dbSNP
rs530007232 381 dbSNP
rs890430901 387 dbSNP
rs1053141373 389 dbSNP
rs562506693 390 dbSNP
rs145453645 395 dbSNP
rs1335034726 398 dbSNP
rs1490684995 401 dbSNP
rs1379543558 408 dbSNP
rs577011914 414 dbSNP
rs3963191 422 dbSNP
rs140602586 425 dbSNP
rs527913808 446 dbSNP
rs1340051244 449 dbSNP
rs948500051 460 dbSNP
rs1274927862 465 dbSNP
rs539974304 466 dbSNP
rs1201361018 477 dbSNP
rs1259636594 479 dbSNP
rs1458016585 489 dbSNP
rs1197800928 492 dbSNP
rs915748565 508 dbSNP
rs992720613 509 dbSNP
rs1199576047 520 dbSNP
rs1378258608 550 dbSNP
rs1282833990 558 dbSNP
rs1405815996 559 dbSNP
rs1174506004 572 dbSNP
rs1402766601 575 dbSNP
rs572476742 577 dbSNP
rs1306276289 583 dbSNP
rs1409890358 584 dbSNP
rs1394874992 588 dbSNP
rs908190719 605 dbSNP
rs1324838142 607 dbSNP
rs1397885259 640 dbSNP
rs1169983446 641 dbSNP
rs1221189251 641 dbSNP
rs1318171748 643 dbSNP
rs1464814750 648 dbSNP
rs1249399415 654 dbSNP
rs367864899 658 dbSNP
rs1210337176 659 dbSNP
rs1266635499 661 dbSNP
rs1490195120 666 dbSNP
rs1176617613 668 dbSNP
rs1425968749 670 dbSNP
rs1478268904 674 dbSNP
rs982493543 675 dbSNP
rs1248966098 691 dbSNP
rs1459809102 697 dbSNP
rs1180914700 702 dbSNP
rs952567951 702 dbSNP
rs1402488302 707 dbSNP
rs1438295793 722 dbSNP
rs1340662794 725 dbSNP
rs1026770653 744 dbSNP
rs1252647443 754 dbSNP
rs1323253267 762 dbSNP
rs1245281502 780 dbSNP
rs1198688517 833 dbSNP
rs112346432 859 dbSNP
rs1357200932 863 dbSNP
rs1265411958 869 dbSNP
rs1343982036 869 dbSNP
rs536581740 869 dbSNP
rs1263535106 881 dbSNP
rs2236014 888 dbSNP
rs1259956278 893 dbSNP
rs1425876818 924 dbSNP
rs996561049 936 dbSNP
rs1368330131 940 dbSNP
rs1423282827 949 dbSNP
rs1325994790 959 dbSNP
rs964811824 967 dbSNP
rs1017748368 968 dbSNP
rs1418606346 973 dbSNP
rs1286715776 979 dbSNP
rs1286496470 992 dbSNP
rs1441627405 1000 dbSNP
rs200201357 1001 dbSNP
rs1331413176 1002 dbSNP
rs1380385741 1010 dbSNP
rs1286708373 1011 dbSNP
rs1394802749 1018 dbSNP
rs1009076823 1029 dbSNP
rs890745210 1042 dbSNP
rs1177672204 1051 dbSNP
rs1470747702 1059 dbSNP
rs1182727068 1064 dbSNP
rs1242901785 1069 dbSNP
rs1443213421 1071 dbSNP
rs1181017595 1072 dbSNP
rs879541699 1093 dbSNP
rs1381508682 1105 dbSNP
rs1409365554 1108 dbSNP
rs1360457961 1109 dbSNP
rs796638167 1112 dbSNP
rs1466220691 1114 dbSNP
rs1301947143 1116 dbSNP
rs1403594376 1116 dbSNP
rs1053525003 1137 dbSNP
rs1309831821 1138 dbSNP
rs1376085711 1155 dbSNP
rs1157462210 1159 dbSNP
rs1223228705 1164 dbSNP
rs1304949645 1172 dbSNP
rs998899464 1173 dbSNP
rs1211055691 1180 dbSNP
rs535710370 1185 dbSNP
rs1460229384 1221 dbSNP
rs1200938856 1224 dbSNP
rs1239257213 1226 dbSNP
rs1185243796 1229 dbSNP
rs1176045623 1233 dbSNP
rs1426637017 1234 dbSNP
rs1460826595 1242 dbSNP
rs1175220742 1245 dbSNP
rs1243517296 1271 dbSNP
rs1466941703 1278 dbSNP
rs904529191 1287 dbSNP
rs373159590 1292 dbSNP
rs1295268061 1301 dbSNP
rs1043121603 1312 dbSNP
rs948799898 1328 dbSNP
rs1486812164 1333 dbSNP
rs1321685342 1334 dbSNP
rs1220773486 1364 dbSNP
rs1259097016 1370 dbSNP
rs1223460628 1372 dbSNP
rs915717597 1376 dbSNP
rs1248999907 1417 dbSNP
rs1488496275 1440 dbSNP
rs1351404955 1442 dbSNP
rs1426695597 1456 dbSNP
rs1478597515 1464 dbSNP
rs1171018666 1465 dbSNP
rs1281360001 1466 dbSNP
rs1408036167 1467 dbSNP
rs1166777507 1468 dbSNP
rs1350421259 1470 dbSNP
rs1057017472 1472 dbSNP
rs1302630665 1477 dbSNP
rs938579358 1479 dbSNP
rs1402056870 1480 dbSNP
rs1243234712 1482 dbSNP
rs1339098065 1498 dbSNP
rs1213207160 1505 dbSNP
rs1292582273 1518 dbSNP
rs1322859048 1535 dbSNP
rs1382783666 1550 dbSNP
rs3175013 1551 dbSNP
rs4034611 1551 dbSNP
rs1337770709 1553 dbSNP
rs1241186832 1563 dbSNP
rs1161649013 1570 dbSNP
rs1216081399 1570 dbSNP
rs1414353227 1570 dbSNP
rs879037861 1570 dbSNP
rs879144408 1570 dbSNP
rs1454964477 1571 dbSNP
rs908494933 1573 dbSNP
rs1421626703 1592 dbSNP
rs982848935 1602 dbSNP
rs1326091375 1604 dbSNP
rs1428986482 1605 dbSNP
rs1286320368 1606 dbSNP
rs1384070685 1636 dbSNP
rs1245850914 1641 dbSNP
rs1290265358 1641 dbSNP
rs1317151962 1644 dbSNP
rs1355169995 1644 dbSNP
rs1216728022 1647 dbSNP
rs952380914 1649 dbSNP
rs1444927810 1668 dbSNP
rs1386418040 1683 dbSNP
rs919597270 1713 dbSNP
rs1237823351 1735 dbSNP
rs1443930967 1739 dbSNP
rs975110363 1740 dbSNP
rs1181637381 1741 dbSNP
rs963779187 1743 dbSNP
rs1385839226 1760 dbSNP
rs1185369643 1767 dbSNP
rs1159228871 1770 dbSNP
rs1384434787 1787 dbSNP
rs1399165265 1791 dbSNP
rs1336451648 1799 dbSNP
rs1407256978 1809 dbSNP
rs1452404369 1810 dbSNP
rs1313488768 1822 dbSNP
rs371027043 1830 dbSNP
rs1379778733 1842 dbSNP
rs1239054798 1854 dbSNP
rs1278439813 1863 dbSNP
rs1347994634 1867 dbSNP
rs1447392548 1872 dbSNP
rs7941 1877 dbSNP
rs879169687 1894 dbSNP
rs556628550 1904 dbSNP
rs1239865300 1906 dbSNP
rs1017716823 1933 dbSNP
rs1009093721 1948 dbSNP
rs1363284785 1963 dbSNP
rs955118643 1983 dbSNP
rs1174492315 1994 dbSNP
rs1430266103 2002 dbSNP
rs1359324626 2023 dbSNP
rs1316291093 2057 dbSNP
rs1402991659 2062 dbSNP
rs1392465203 2071 dbSNP
rs1328834263 2073 dbSNP
rs1031885965 2080 dbSNP
rs1234812088 2088 dbSNP
rs1283463010 2102 dbSNP
rs1322412910 2120 dbSNP
rs1221383255 2129 dbSNP
rs1248846297 2132 dbSNP
rs1363389960 2144 dbSNP
rs1339892200 2153 dbSNP
rs1195121943 2156 dbSNP
rs1248364921 2164 dbSNP
rs1436098824 2165 dbSNP
rs1201103380 2181 dbSNP
rs1269994585 2181 dbSNP
rs999513893 2184 dbSNP
rs538410864 2203 dbSNP
rs1174620518 2208 dbSNP
rs1346667903 2211 dbSNP
rs1462843851 2217 dbSNP
rs1167795983 2221 dbSNP
rs1394985369 2222 dbSNP
rs1387938757 2224 dbSNP
rs1303230441 2234 dbSNP
rs904497916 2243 dbSNP
rs1402698542 2244 dbSNP
rs1279745385 2245 dbSNP
rs1320980403 2248 dbSNP
rs1307817086 2258 dbSNP
rs1226444808 2266 dbSNP
rs1249485698 2272 dbSNP
rs1358381678 2277 dbSNP
rs1223218869 2291 dbSNP
rs1292570018 2294 dbSNP
rs1490221004 2297 dbSNP
rs1197496675 2310 dbSNP
rs1423399792 2315 dbSNP
rs1365692705 2321 dbSNP
rs1165319280 2323 dbSNP
rs1192927493 2323 dbSNP
rs1371772685 2337 dbSNP
rs570988976 2343 dbSNP
rs1021646647 2349 dbSNP
rs1164835359 2363 dbSNP
rs1364378433 2367 dbSNP
rs1422243725 2379 dbSNP
rs552670641 2382 dbSNP
rs1418506649 2396 dbSNP
rs527811250 2411 dbSNP
rs1381374339 2415 dbSNP
rs1293170613 2416 dbSNP
rs1342100001 2428 dbSNP
rs1246594880 2431 dbSNP
rs1186954827 2432 dbSNP
rs894587969 2437 dbSNP
rs1220370278 2438 dbSNP
rs200138095 2444 dbSNP
rs1204837099 2451 dbSNP
rs1260062038 2452 dbSNP
rs1244107700 2453 dbSNP
rs1197566664 2457 dbSNP
rs1184713289 2472 dbSNP
rs1385179349 2475 dbSNP
rs1442173793 2476 dbSNP
rs1056984906 2484 dbSNP
rs548615474 2486 dbSNP
rs1452588672 2487 dbSNP
rs1292602510 2507 dbSNP
rs1225294743 2521 dbSNP
rs938562682 2533 dbSNP
rs147302980 2534 dbSNP
rs1272739826 2542 dbSNP
rs576667605 2543 dbSNP
rs1364550019 2544 dbSNP
rs1272675658 2550 dbSNP
rs1309224965 2559 dbSNP
rs931242930 2567 dbSNP
rs919565908 2570 dbSNP
rs1259219260 2571 dbSNP
rs1204720497 2578 dbSNP
rs1242998571 2582 dbSNP
rs1460365894 2587 dbSNP
rs1179521046 2604 dbSNP
rs1408042534 2606 dbSNP
rs975079423 2610 dbSNP
rs1418042469 2611 dbSNP
rs942438135 2618 dbSNP
rs1430994701 2636 dbSNP
rs912343685 2637 dbSNP
rs1335837284 2641 dbSNP
rs562799342 2642 dbSNP
rs1298722742 2651 dbSNP
rs954860311 2653 dbSNP
rs1304487462 2654 dbSNP
rs1390919295 2657 dbSNP
rs556398469 2661 dbSNP
rs544209272 2662 dbSNP
rs1407911766 2674 dbSNP
rs1325928440 2675 dbSNP
rs1032273891 2676 dbSNP
rs1262892426 2692 dbSNP
rs977672626 2693 dbSNP
rs968987152 2705 dbSNP
rs1233998100 2706 dbSNP
rs1422840468 2713 dbSNP
rs17083371 2714 dbSNP
rs761187648 2720 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions TZM-bl
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... PAR-CLIP data was present in GSM1462574. RNA binding protein: AGO2. Condition:TZM-bl ami BaL ...

- Whisnant AW; Bogerd HP; Flores O; Ho P; et al., 2013, mBio.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' uuguuguUUAGGGUCAGAUGGa 5'
                 |:| ||  |||||| 
Target 5' auccugcAGUGCCCCUCUACCa 3'
 		8 - 29
Article - Whisnant AW; Bogerd HP; Flores O; Ho P; et al.
- mBio, 2013
UNLABELLED: The question of how HIV-1 interfaces with cellular microRNA (miRNA) biogenesis and effector mechanisms has been highly controversial. Here, we first used deep sequencing of small RNAs present in two different infected cell lines (TZM-bl and C8166) and two types of primary human cells (CD4(+) peripheral blood mononuclear cells [PBMCs] and macrophages) to unequivocally demonstrate that HIV-1 does not encode any viral miRNAs. Perhaps surprisingly, we also observed that infection of T cells by HIV-1 has only a modest effect on the expression of cellular miRNAs at early times after infection. Comprehensive analysis of miRNA binding to the HIV-1 genome using the photoactivatable ribonucleoside-induced cross-linking and immunoprecipitation (PAR-CLIP) technique revealed several binding sites for cellular miRNAs, a subset of which were shown to be capable of mediating miRNA-mediated repression of gene expression. However, the main finding from this analysis is that HIV-1 transcripts are largely refractory to miRNA binding, most probably due to extensive viral RNA secondary structure. Together, these data demonstrate that HIV-1 neither encodes viral miRNAs nor strongly influences cellular miRNA expression, at least early after infection, and imply that HIV-1 transcripts have evolved to avoid inhibition by preexisting cellular miRNAs by adopting extensive RNA secondary structures that occlude most potential miRNA binding sites. IMPORTANCE: MicroRNAs (miRNAs) are a ubiquitous class of small regulatory RNAs that serve as posttranscriptional regulators of gene expression. Previous work has suggested that HIV-1 might subvert the function of the cellular miRNA machinery by expressing viral miRNAs or by dramatically altering the level of cellular miRNA expression. Using very sensitive approaches, we now demonstrate that neither of these ideas is in fact correct. Moreover, HIV-1 transcripts appear to largely avoid regulation by cellular miRNAs by adopting an extensive RNA secondary structure that occludes the ability of cellular miRNAs to interact with viral mRNAs. Together, these data suggest that HIV-1, rather than seeking to control miRNA function in infected cells, has instead evolved a mechanism to become largely invisible to cellular miRNA effector mechanisms.
LinkOut: [PMID: 23592263]
CLIP-seq Support 1 for dataset GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000367231.5 | 3UTR | CCCCUUUAUCCUGCAGUGCCCCUCUACCACCACCUACUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23592263 / GSE59944
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
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
66 hsa-miR-3529-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT068541 NHLRC3 NHL repeat containing 3 2 6
MIRT094173 PCGF3 polycomb group ring finger 3 2 6
MIRT100107 ABT1 activator of basal transcription 1 2 8
MIRT120933 PDE12 phosphodiesterase 12 2 8
MIRT179060 PAFAH1B2 platelet activating factor acetylhydrolase 1b catalytic subunit 2 2 6
MIRT202049 ZSWIM1 zinc finger SWIM-type containing 1 2 2
MIRT215733 C5ORF51 chromosome 5 open reading frame 51 2 10
MIRT254619 HIC2 HIC ZBTB transcriptional repressor 2 2 2
MIRT266230 PEX11B peroxisomal biogenesis factor 11 beta 2 2
MIRT297452 SLC20A1 solute carrier family 20 member 1 2 4
MIRT315453 SLC16A10 solute carrier family 16 member 10 2 2
MIRT442138 C3orf17 nucleolus and neural progenitor protein 2 2
MIRT453879 IFRD1 interferon related developmental regulator 1 2 12
MIRT456259 TDRKH tudor and KH domain containing 2 12
MIRT456413 MTRF1L mitochondrial translational release factor 1 like 2 2
MIRT459730 RRM1 ribonucleotide reductase catalytic subunit M1 2 2
MIRT461475 METTL1 methyltransferase like 1 2 2
MIRT463790 YBX1 Y-box binding protein 1 2 6
MIRT464032 WASL Wiskott-Aldrich syndrome like 2 2
MIRT464207 VGLL4 vestigial like family member 4 2 2
MIRT466713 SYNJ2BP synaptojanin 2 binding protein 2 2
MIRT467958 SLC16A1 solute carrier family 16 member 1 2 4
MIRT469225 RHOBTB3 Rho related BTB domain containing 3 2 2
MIRT473960 LRRC58 leucine rich repeat containing 58 2 2
MIRT475310 IFNLR1 interferon lambda receptor 1 2 2
MIRT476946 FAM83G family with sequence similarity 83 member G 2 4
MIRT477746 EDN1 endothelin 1 2 2
MIRT478261 DDX19B DEAD-box helicase 19B 2 2
MIRT478681 CSRP2 cysteine and glycine rich protein 2 2 4
MIRT490256 HAAO 3-hydroxyanthranilate 3,4-dioxygenase 2 2
MIRT493290 LNPEP leucyl and cystinyl aminopeptidase 2 2
MIRT493565 HSPA5 heat shock protein family A (Hsp70) member 5 2 2
MIRT495961 TBC1D19 TBC1 domain family member 19 2 2
MIRT497107 BEST3 bestrophin 3 2 2
MIRT498349 CISD1 CDGSH iron sulfur domain 1 2 2
MIRT500784 TMBIM6 transmembrane BAX inhibitor motif containing 6 2 8
MIRT501092 SLC5A6 solute carrier family 5 member 6 2 4
MIRT505308 TPD52 tumor protein D52 2 2
MIRT511108 NFIB nuclear factor I B 2 4
MIRT512736 CD59 CD59 molecule (CD59 blood group) 2 4
MIRT514270 ZNF519 zinc finger protein 519 2 2
MIRT514603 NDUFA12 NADH:ubiquinone oxidoreductase subunit A12 2 4
MIRT515379 RPL7 ribosomal protein L7 2 2
MIRT518565 GDPD1 glycerophosphodiester phosphodiesterase domain containing 1 2 2
MIRT520460 TRPV2 transient receptor potential cation channel subfamily V member 2 2 2
MIRT529766 SF3B1 splicing factor 3b subunit 1 2 2
MIRT538006 DNAL1 dynein axonemal light chain 1 2 2
MIRT538251 CUL3 cullin 3 2 4
MIRT543778 RBM12B RNA binding motif protein 12B 2 4
MIRT546204 TOR1AIP2 torsin 1A interacting protein 2 2 2
MIRT547202 PARP1 poly(ADP-ribose) polymerase 1 2 2
MIRT548441 ELMOD2 ELMO domain containing 2 2 2
MIRT551635 TRUB1 TruB pseudouridine synthase family member 1 2 4
MIRT553335 TSC22D2 TSC22 domain family member 2 2 2
MIRT556170 MCC mutated in colorectal cancers 2 2
MIRT557969 FAM222B family with sequence similarity 222 member B 2 2
MIRT560717 ZNF749 zinc finger protein 749 2 2
MIRT564115 ZYG11B zyg-11 family member B, cell cycle regulator 2 4
MIRT564375 MRPS18B mitochondrial ribosomal protein S18B 2 2
MIRT566934 LIN28B lin-28 homolog B 2 2
MIRT573339 TUBD1 tubulin delta 1 2 2
MIRT607187 SPRY4 sprouty RTK signaling antagonist 4 2 2
MIRT694902 THAP6 THAP domain containing 6 2 2
MIRT698514 TGFBR1 transforming growth factor beta receptor 1 2 2
MIRT704038 EDEM3 ER degradation enhancing alpha-mannosidase like protein 3 2 2
MIRT714583 PRRC1 proline rich coiled-coil 1 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-3529-5p Gefitinib 123631 NSC715055 approved resistant cell line (PC9)
hsa-miR-3529-5p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-3529-5p Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)
hsa-miR-3529-5p Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (100 ng/ml)

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