miRTarBase - #MIRT478236


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pre-miRNA Information
pre-miRNA hsa-mir-106a   
Genomic Coordinates chrX: 134170198 - 134170278
Description Homo sapiens miR-106a stem-loop
Comment This miRNA was not cloned in reference .
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-106a-3p
Sequence 50| CUGCAAUGUAAGCACUUCUUAC |71
Evidence Experimental
Experiments Cloned
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs927823355 6 dbSNP
rs1448271699 8 dbSNP
rs1477844174 12 dbSNP
rs1358970494 18 dbSNP
rs781747706 21 dbSNP
Putative Targets

miRNA Expression profile
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Biomarker Information
Biomarker ID Name Type Discovered From Mode Level Source Testing Methods
BN3X2A miR-106a Predictive Biomarker (PRD) Clinical/Experimental Data Expression Decrease Tumor tissue Quantitative real-time PCR
Gene Information
Gene Symbol DDX3X   
Synonyms CAP-Rf, DBX, DDX14, DDX3, HLP2, MRX102
Description DEAD-box helicase 3, X-linked
Transcript NM_001356   
Expression
Putative miRNA Targets on DDX3X
3'UTR of DDX3X
(miRNA target sites are highlighted)		 
>DDX3X|NM_001356|3'UTR
   1 GCCTGCTTTGCAGTAGGTCACCCTGCCAAACAAGCTAATATGGAAACCACATGTAACTTAGCCAGACTATACCTTGTGTA
  81 GCTTCAAGAACTCGCAGTACATTACCAGCTGTGATTCTCCACTGAAATTTTTTTTTTAAGGGAGCTCAAGGTCACAAGAA
 161 GAAATGAAAGGAACAATCAGCAGCCCTGTTCAGAAGGTGGTTTGAAGACTTCATTGCTGTAGTTTGGATTAACTCCCCTC
 241 CCGCCTACCCCCATCCCAAACTGCATTTATAATTTTGTGACTGAGGATCATTTGTTTGTTAATGTACTGTGCCTTTAACT
 321 TTAGACAACTTTTTATTTTGATGTCCTGTTGGCTCAGTAATGCTCAAGATATCAATTGTTTTGACAAAATAAATTTACTG
 401 AACTTGGGCTAAAATCAAACCTTGGCACACAGGTGTGATACAACTTAACAGGAATCATCGATTCATCCATAAATAATATA
 481 AGGAAAAACTTATGCGGTAGCCTGCATTAGGGCTTTTTGATACTTGCAGATTGGGGGAAAACAACAAATGTCTTGAAGCA
 561 TATTAATGGAATTAGTTTCTAATGTGGCAAACTGTATTAAGTTAAAGTTCTGATTTGCTCACTCTATCCTGGATAGGTAT
 641 TTAGAACCTGATAGTCTTTAAGCCATTCCAGTCATGATGAGGTGATGTATGAATACATGCATACATTCAAAGCACTGTTT
 721 TCAAAGTTAATGCAAGTAAATACAGCAATTCCTCTTTCAACGTTTAGGCAGATCATTAATTATGAGCTAGCCAAATGTGG
 801 GCATACTATTACAGGGAAAGTTTAAAGGTCTGATAACTTGAAATAGGTTTTTAGGAGAATTCATCTACTTAGACTTTTTA
 881 AATGCCTGCCATAAATGAAATTGAAATGGTAGAATGGCTGACCACAGCAATGACCAGCCCTCATTAGGGCCCTGGATGAT
 961 TTTTGGTCTAATAACGCATGCTAGTGTTGATGTTTTTTGGTCAAGAGGGTATGAACAGGAAGAATTAAATGCAGCAGGCT
1041 TTATTTTAAATGCCGATTCACATTACTCTGTTCAAGCTGCGTTGAGATGTTAAACTGGCTTACTATAGACTTCGTAAAAA
1121 TGGCTCCAGAAGAGTAACAAACTGAAATCTTTGAGATCACACAGGTTGGAAATATGTACATAACTGCACAAGGTGTCAAT
1201 TCTGCTCTACAGTGCAGTTTTAGTCAGTTTTAGTTGCATAGGTTTCCATTGTATTTATAGTCTGTTTATGCTAAATCTGG
1281 CCAAAGATGAGCATTGTCCACCACTAAAATGCCTCTGCCACTTTGAATTCTGTGCTAATTTTGTGGCCAGAATGCGGTGA
1361 TCAAAACGCTCCATCTTTTTACAGTGGCATAGGAAGACGGCAAAAATTTCCTAAAGTGCAATAGATTTTCAAGTGTATTG
1441 TGCCTTGTTCTAAAACTTTTATTAAGTAGGTGCACTTGACAGTATTGAGGTCATTTGTTATGGTGCTATTTCAATTAGTC
1521 TAGGTTTAGGCCCTTGTACATTTTGCCCATAACTTTTTACAAAGTACTTCTTTTATTGCACATTCAGAGAATTTTATATA
1601 TATGTCTTGTGTGCGTGTCCTTAAACTTCCAATCTTACTTTGTCTCTTGGAGATTGTTGAACGCAGCTTGTCTAGGAAGG
1681 GGATGGGACTAGATTCTAAAATTTATTTGGGACCATGGGAATGATAGTTGGGAAGAAAACTATTTGCACACGACAGATTT
1761 CTAGATACTTTTTGCTGCTAGTTTTATGTAATATTTATTGAACATTTTGACAAATATTTATTTTTGTAAGCCTAAAAGTG
1841 ATTCTTTGAAAGTTTAAAGAAACTTGACCAAAAGACAGTACAAAAACACTGGCACTTGAATGTTGAATGTCACCGTATGC
1921 GTGAAATTATATATTTCGGGGTAGTGTGAGCTTTTAATGTTTAAGTCATATTAAACTCTTAAGTCAAATTAAGCAGACCC
2001 GGCGTTGGCAGTGTAGCCATAACTTTCTGATGTTAGTAAAAACAAAATTGGCGACTTGAAATTAAATCATGCCAAGGTTT
2081 TGATACACTTGTCTTAAGATATTAATGAAACACTTCAAAACACTGATGTGAAGTGTCCAGATTCTCAGATGTTTGTTGTG
2161 TGGATTTTGTTTAGTTGTGTGTTTTTTTTTTTTTTTCAGTGAATGTCTGGCACATTGCAATCCTCAAACATGTGGTTATC
2241 TTTGTTGTATTGGCATAATCAGTGACTTGTACATTCAGCAATAGCATTTGAGCAAGTTTTATCAGCAAGCAATATTTTCA
2321 GTTAATAAGGTTTCAAAAATCATGTAAGGATTTAAACTTGCTGAATGTAAAGATTGAACCTCAAGTCACTGTAGCTTTAG
2401 TAATTGCTTATTGTATTAGTTTAGATGCTAGCACTGCATGTGCTGTGCATATTCTGATTTTATTAAAATAAAAAGTTGAA
2481 CTGCACAGTCTCCTTTGTTGTTGTCAATTGTGGTTTATTTTCAGAGGTGTAAATAAAGTGCTCTTGCCTGAAAAATTGTA
2561 AAATGTTAAAAAAAAAAAAAAAAAA
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' cauuCUUCACGAA---UGUAACGUc 5'
              ||| ||: |   |||||||| 
Target 5' cagtGAA-TGTCTGGCACATTGCAa 3'
 2197 - 2220 153.00 -9.80
2 
miRNA  3' caUUCUUCACGAAUGUAACGUc 5'
            ||| | | ||| :|||||| 
Target 5' caAAGTACTTCTTTTATTGCAc 3'
 1560 - 1581 152.00 -8.10
3 
miRNA  3' cauucuUCACGAAUGUAACGUc 5'
                || |:|| |||||:| 
Target 5' ttgcatAG-GTTTCCATTGTAt 3'
 1234 - 1254 139.00 -7.70
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs761187616 2 dbSNP
rs746863718 3 dbSNP
rs768473702 4 dbSNP
rs776609516 7 dbSNP
rs1204081529 8 dbSNP
rs1348074660 14 dbSNP
rs748100931 21 dbSNP
rs769230915 22 dbSNP
rs1236954563 23 dbSNP
rs772742027 24 dbSNP
rs762467559 29 dbSNP
rs1349058942 32 dbSNP
rs1424227581 40 dbSNP
rs766101073 42 dbSNP
rs972463796 52 dbSNP
rs1169127900 54 dbSNP
rs754064835 56 dbSNP
rs952501851 81 dbSNP
rs1328229472 94 dbSNP
rs985040046 95 dbSNP
rs755187450 96 dbSNP
rs1383054324 102 dbSNP
rs1175831941 107 dbSNP
rs943507901 118 dbSNP
rs1300181162 127 dbSNP
rs1171639212 128 dbSNP
rs962482657 128 dbSNP
rs1242684681 138 dbSNP
rs1388757094 139 dbSNP
rs1191831062 147 dbSNP
rs1039183098 151 dbSNP
rs778745778 152 dbSNP
rs1259101086 161 dbSNP
rs923443460 162 dbSNP
rs933365420 165 dbSNP
rs764539353 166 dbSNP
rs1280101517 175 dbSNP
rs1053633235 177 dbSNP
rs1347355771 192 dbSNP
rs1342056503 197 dbSNP
rs939247104 198 dbSNP
rs1216762770 221 dbSNP
rs992871072 223 dbSNP
rs754205996 230 dbSNP
rs1415649893 241 dbSNP
rs1205924505 243 dbSNP
rs1012020929 244 dbSNP
rs372583916 252 dbSNP
rs1167270173 258 dbSNP
rs1474110199 277 dbSNP
rs1419423041 290 dbSNP
rs1041784596 291 dbSNP
rs1209653125 316 dbSNP
rs1485120176 323 dbSNP
rs905828369 329 dbSNP
rs1208440542 336 dbSNP
rs936191108 373 dbSNP
rs1001408656 374 dbSNP
rs141148280 384 dbSNP
rs1316089939 386 dbSNP
rs1295171475 399 dbSNP
rs1234032480 406 dbSNP
rs1355048552 410 dbSNP
rs1423538754 415 dbSNP
rs1478190157 436 dbSNP
rs1282711044 441 dbSNP
rs1172545984 445 dbSNP
rs1366957515 446 dbSNP
rs1039895211 453 dbSNP
rs1035452036 459 dbSNP
rs998833215 460 dbSNP
rs750738573 461 dbSNP
rs1056357 466 dbSNP
rs993854773 470 dbSNP
rs747950068 479 dbSNP
rs952397173 480 dbSNP
rs1204392224 481 dbSNP
rs1397898932 484 dbSNP
rs1456807873 487 dbSNP
rs1297512247 490 dbSNP
rs1275665342 494 dbSNP
rs1340989779 496 dbSNP
rs984225088 497 dbSNP
rs191078702 502 dbSNP
rs1225710948 503 dbSNP
rs183543802 516 dbSNP
rs1215839614 521 dbSNP
rs1309911956 524 dbSNP
rs1278700251 528 dbSNP
rs772040867 538 dbSNP
rs773176719 540 dbSNP
rs964925651 545 dbSNP
rs975005455 556 dbSNP
rs1460405668 580 dbSNP
rs1033916495 584 dbSNP
rs1160780260 585 dbSNP
rs777617499 587 dbSNP
rs960671126 591 dbSNP
rs1406857452 593 dbSNP
rs1178397139 595 dbSNP
rs1438303306 596 dbSNP
rs1255370095 598 dbSNP
rs747067311 599 dbSNP
rs1194820364 600 dbSNP
rs1468053596 602 dbSNP
rs1245093163 625 dbSNP
rs1218093395 634 dbSNP
rs992462951 642 dbSNP
rs12838867 647 dbSNP
rs1283892673 649 dbSNP
rs1237677834 659 dbSNP
rs923410846 660 dbSNP
rs917260646 666 dbSNP
rs933499622 675 dbSNP
rs945996989 682 dbSNP
rs28364818 693 dbSNP
rs977414349 695 dbSNP
rs1056358 714 dbSNP
rs1364826739 717 dbSNP
rs775642389 718 dbSNP
rs754909334 720 dbSNP
rs189047420 722 dbSNP
rs1161240185 733 dbSNP
rs913342647 741 dbSNP
rs1344233505 744 dbSNP
rs192439219 746 dbSNP
rs1418196022 749 dbSNP
rs770374177 750 dbSNP
rs1174774836 758 dbSNP
rs370210510 759 dbSNP
rs150291427 761 dbSNP
rs937228791 762 dbSNP
rs1188388874 770 dbSNP
rs1262661204 775 dbSNP
rs1056992853 776 dbSNP
rs1486500970 781 dbSNP
rs759161501 784 dbSNP
rs1280820902 809 dbSNP
rs1254214422 811 dbSNP
rs1233343628 812 dbSNP
rs1423294486 814 dbSNP
rs1164511172 818 dbSNP
rs994435964 821 dbSNP
rs1214578256 829 dbSNP
rs770595846 831 dbSNP
rs769385297 833 dbSNP
rs772848431 838 dbSNP
rs934261141 841 dbSNP
rs1416281268 842 dbSNP
rs1051748158 847 dbSNP
rs1313850389 849 dbSNP
rs774766683 869 dbSNP
rs776206800 880 dbSNP
rs1003873359 887 dbSNP
rs1429134732 898 dbSNP
rs1361127563 904 dbSNP
rs1432857432 929 dbSNP
rs1037982553 936 dbSNP
rs1191726249 941 dbSNP
rs1476291761 944 dbSNP
rs1258545901 946 dbSNP
rs1199657920 949 dbSNP
rs898278507 969 dbSNP
rs1252943624 976 dbSNP
rs1001879814 977 dbSNP
rs1300989799 982 dbSNP
rs1306376509 988 dbSNP
rs1275726222 1007 dbSNP
rs184422133 1020 dbSNP
rs1355677530 1029 dbSNP
rs1292364226 1035 dbSNP
rs770503392 1036 dbSNP
rs1395739193 1053 dbSNP
rs1400529378 1053 dbSNP
rs188053707 1055 dbSNP
rs1462971011 1056 dbSNP
rs1400264049 1059 dbSNP
rs1168594661 1063 dbSNP
rs1316727676 1065 dbSNP
rs1418762091 1066 dbSNP
rs758990835 1066 dbSNP
rs1350972903 1076 dbSNP
rs764675036 1082 dbSNP
rs1421784852 1107 dbSNP
rs1252448891 1111 dbSNP
rs966617551 1114 dbSNP
rs1238454753 1118 dbSNP
rs1457248666 1125 dbSNP
rs1256149144 1132 dbSNP
rs977445435 1141 dbSNP
rs1215008588 1143 dbSNP
rs925932716 1154 dbSNP
rs1264435519 1155 dbSNP
rs1285703279 1156 dbSNP
rs1317862541 1158 dbSNP
rs1218617373 1162 dbSNP
rs1271314799 1163 dbSNP
rs1339031638 1164 dbSNP
rs957456713 1176 dbSNP
rs1236216499 1181 dbSNP
rs750904417 1188 dbSNP
rs761286900 1200 dbSNP
rs921448167 1202 dbSNP
rs777316498 1203 dbSNP
rs144966805 1210 dbSNP
rs1159553230 1212 dbSNP
rs1051267844 1214 dbSNP
rs773809766 1215 dbSNP
rs1195434209 1222 dbSNP
rs908822334 1227 dbSNP
rs1266088065 1243 dbSNP
rs1207592176 1249 dbSNP
rs940263723 1258 dbSNP
rs1261007980 1263 dbSNP
rs764737853 1263 dbSNP
rs752012524 1265 dbSNP
rs1402223957 1266 dbSNP
rs1038012318 1269 dbSNP
rs1477104618 1279 dbSNP
rs1443796906 1287 dbSNP
rs762261667 1289 dbSNP
rs1322951376 1291 dbSNP
rs1385223672 1306 dbSNP
rs1387415525 1316 dbSNP
rs1289675436 1322 dbSNP
rs1001964578 1325 dbSNP
rs766527316 1332 dbSNP
rs1378279923 1338 dbSNP
rs5963957 1339 dbSNP
rs1338065735 1344 dbSNP
rs750762642 1348 dbSNP
rs1377052415 1350 dbSNP
rs1445631205 1354 dbSNP
rs755214981 1357 dbSNP
rs896229208 1358 dbSNP
rs765441946 1363 dbSNP
rs1013879402 1364 dbSNP
rs763165535 1369 dbSNP
rs1277123651 1372 dbSNP
rs1284281935 1389 dbSNP
rs1237018292 1390 dbSNP
rs1312074178 1393 dbSNP
rs1346307635 1399 dbSNP
rs966648040 1400 dbSNP
rs1328293693 1404 dbSNP
rs1204422229 1430 dbSNP
rs768052807 1455 dbSNP
rs1399665379 1456 dbSNP
rs1265125033 1457 dbSNP
rs750774419 1459 dbSNP
rs1033012566 1460 dbSNP
rs1435167324 1461 dbSNP
rs1401404636 1462 dbSNP
rs957322741 1467 dbSNP
rs1476080456 1476 dbSNP
rs1198318500 1483 dbSNP
rs1233665628 1488 dbSNP
rs766544623 1515 dbSNP
rs1476621875 1516 dbSNP
rs1471044263 1521 dbSNP
rs1259249406 1523 dbSNP
rs1213454767 1530 dbSNP
rs975429362 1532 dbSNP
rs1278470517 1558 dbSNP
rs1189189198 1562 dbSNP
rs1424396370 1563 dbSNP
rs1341516122 1565 dbSNP
rs1480697833 1565 dbSNP
rs1178458916 1570 dbSNP
rs1218146846 1586 dbSNP
rs780315155 1589 dbSNP
rs1295422189 1590 dbSNP
rs1397559593 1595 dbSNP
rs1464635469 1598 dbSNP
rs921385613 1601 dbSNP
rs1329207075 1603 dbSNP
rs955465927 1603 dbSNP
rs1355852126 1604 dbSNP
rs987403766 1607 dbSNP
rs191556194 1609 dbSNP
rs1273403070 1610 dbSNP
rs1169323377 1611 dbSNP
rs1367309661 1616 dbSNP
rs1419480709 1617 dbSNP
rs908687069 1631 dbSNP
rs1473304674 1634 dbSNP
rs1224718275 1639 dbSNP
rs1285739322 1647 dbSNP
rs940294830 1649 dbSNP
rs755064861 1657 dbSNP
rs1259335126 1663 dbSNP
rs1198019387 1671 dbSNP
rs1273994778 1684 dbSNP
rs1275228800 1694 dbSNP
rs1439722700 1698 dbSNP
rs758067575 1715 dbSNP
rs781079886 1739 dbSNP
rs752699164 1741 dbSNP
rs1219142762 1743 dbSNP
rs1282187881 1744 dbSNP
rs755892218 1746 dbSNP
rs937707942 1747 dbSNP
rs1054796685 1748 dbSNP
rs1421382643 1751 dbSNP
rs1477212035 1752 dbSNP
rs1396065129 1757 dbSNP
rs754009150 1767 dbSNP
rs896250715 1769 dbSNP
rs949152601 1814 dbSNP
rs1161816279 1815 dbSNP
rs1411247556 1815 dbSNP
rs1442006822 1837 dbSNP
rs1167931443 1856 dbSNP
rs1421246939 1875 dbSNP
rs1042259619 1897 dbSNP
rs746905097 1908 dbSNP
rs1456468480 1921 dbSNP
rs1254933570 1926 dbSNP
rs1403287060 1930 dbSNP
rs902325961 1932 dbSNP
rs1288068646 1938 dbSNP
rs1225189619 1939 dbSNP
rs1354161625 1946 dbSNP
rs757222373 1963 dbSNP
rs1032293764 1965 dbSNP
rs1293584333 1979 dbSNP
rs1373154570 1979 dbSNP
rs1435205657 1993 dbSNP
rs780661126 2005 dbSNP
rs1219175866 2014 dbSNP
rs143157550 2023 dbSNP
rs1319885604 2024 dbSNP
rs1421844874 2027 dbSNP
rs1365411949 2032 dbSNP
rs1405933685 2034 dbSNP
rs997275515 2050 dbSNP
rs1028310821 2051 dbSNP
rs745431132 2053 dbSNP
rs1427934263 2054 dbSNP
rs1191839083 2084 dbSNP
rs1488198721 2087 dbSNP
rs749041943 2088 dbSNP
rs184335138 2100 dbSNP
rs986879731 2106 dbSNP
rs1226808944 2111 dbSNP
rs1285010983 2118 dbSNP
rs1270808165 2119 dbSNP
rs1349952545 2129 dbSNP
rs1301978236 2138 dbSNP
rs1218060905 2139 dbSNP
rs1341527904 2140 dbSNP
rs1015716120 2144 dbSNP
rs778479330 2153 dbSNP
rs974204784 2154 dbSNP
rs879175688 2155 dbSNP
rs920217454 2161 dbSNP
rs1224354767 2169 dbSNP
rs1260954973 2173 dbSNP
rs1177439884 2174 dbSNP
rs1423187461 2176 dbSNP
rs1425058200 2176 dbSNP
rs1432613395 2176 dbSNP
rs1478259866 2180 dbSNP
rs1487898852 2180 dbSNP
rs1193769456 2181 dbSNP
rs1275915491 2182 dbSNP
rs1304619885 2182 dbSNP
rs1339439427 2182 dbSNP
rs1491236593 2182 dbSNP
rs201921813 2182 dbSNP
rs745349949 2182 dbSNP
rs745437857 2182 dbSNP
rs1398473587 2183 dbSNP
rs201313897 2183 dbSNP
rs771773583 2184 dbSNP
rs1465956341 2185 dbSNP
rs1471514984 2187 dbSNP
rs1172895256 2196 dbSNP
rs1162351215 2197 dbSNP
rs866735665 2198 dbSNP
rs769484966 2199 dbSNP
rs1165804525 2201 dbSNP
rs188774286 2204 dbSNP
rs1425284066 2214 dbSNP
rs1256634640 2217 dbSNP
rs1359224895 2221 dbSNP
rs1382198766 2230 dbSNP
rs1240020679 2240 dbSNP
rs1198652508 2245 dbSNP
rs762349811 2267 dbSNP
rs181503639 2270 dbSNP
rs1445909834 2272 dbSNP
rs1321986986 2279 dbSNP
rs772277504 2291 dbSNP
rs917563452 2296 dbSNP
rs1333959339 2300 dbSNP
rs1314639250 2303 dbSNP
rs1383729009 2304 dbSNP
rs14554 2313 dbSNP
rs1283670483 2323 dbSNP
rs1369328336 2334 dbSNP
rs949178489 2339 dbSNP
rs1421837483 2340 dbSNP
rs1205703952 2342 dbSNP
rs1042124013 2367 dbSNP
rs902255490 2369 dbSNP
rs773582897 2373 dbSNP
rs1456898193 2376 dbSNP
rs763252865 2381 dbSNP
rs708452 2389 dbSNP
rs1211169031 2390 dbSNP
rs1488597996 2390 dbSNP
rs766604206 2392 dbSNP
rs751771731 2409 dbSNP
rs1244440369 2411 dbSNP
rs1053597919 2412 dbSNP
rs1243394799 2416 dbSNP
rs1312039890 2424 dbSNP
rs1064198 2434 dbSNP
rs900446674 2446 dbSNP
rs996079824 2448 dbSNP
rs3209046 2455 dbSNP
rs1329380276 2464 dbSNP
rs878952279 2467 dbSNP
rs1388665300 2470 dbSNP
rs1391636539 2471 dbSNP
rs1446035893 2473 dbSNP
rs1028759725 2475 dbSNP
rs1456150414 2475 dbSNP
rs1381971534 2481 dbSNP
rs1438979404 2484 dbSNP
rs185737091 2484 dbSNP
rs767643733 2487 dbSNP
rs1200372174 2493 dbSNP
rs1378471289 2493 dbSNP
rs1433273788 2494 dbSNP
rs1266159951 2495 dbSNP
rs752787065 2495 dbSNP
rs1489950380 2497 dbSNP
rs1378910915 2501 dbSNP
rs1288563214 2503 dbSNP
rs891087653 2510 dbSNP
rs1008275330 2511 dbSNP
rs1015666690 2518 dbSNP
rs961438951 2530 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions hESCs (WA-09)
Disease 1654.0
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 SRR359787. RNA binding protein: AGO2. Condition:4-thiouridine ...

- Lipchina I; Elkabetz Y; Hafner M; Sheridan et al., 2011, Genes & development.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' cauucuUCACGAA---UGUAACGUc 5'
                | ||: |   |||||||| 
Target 5' ------AAUGUCUGGCACAUUGCAa 3'
 		1 - 19
Article - Lipchina I; Elkabetz Y; Hafner M; Sheridan et al.
- Genes & development, 2011
MicroRNAs are important regulators in many cellular processes, including stem cell self-renewal. Recent studies demonstrated their function as pluripotency factors with the capacity for somatic cell reprogramming. However, their role in human embryonic stem (ES) cells (hESCs) remains poorly understood, partially due to the lack of genome-wide strategies to identify their targets. Here, we performed comprehensive microRNA profiling in hESCs and in purified neural and mesenchymal derivatives. Using a combination of AGO cross-linking and microRNA perturbation experiments, together with computational prediction, we identified the targets of the miR-302/367 cluster, the most abundant microRNAs in hESCs. Functional studies identified novel roles of miR-302/367 in maintaining pluripotency and regulating hESC differentiation. We show that in addition to its role in TGF-beta signaling, miR-302/367 promotes bone morphogenetic protein (BMP) signaling by targeting BMP inhibitors TOB2, DAZAP2, and SLAIN1. This study broadens our understanding of microRNA function in hESCs and is a valuable resource for future studies in this area.
LinkOut: [PMID: 22012620]
Experimental Support 2 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' cauucuUCACGAA---UGUAACGUc 5'
                | ||: |   |||||||| 
Target 5' ------AAUGUCUGGCACAUUGCAa 3'
 		1 - 19
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 SRR359787
Method / RBP PAR-CLIP / AGO2
Cell line / Condition hESCs (WA-09) / 4-thiouridine, RNase T1
Location of target site ENST00000399959.2 | 3UTR | AAUGUCUGGCACAUUGCAAUCCUCAAACAUGUGGUUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 22012620 / SRX103431
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000399959.2 | 3UTR | AAUGUCUGGCACAUUGCAAUCCUCAAACAUGUGGUUA
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
GSE28260 Renal cortex and medulla 0.745 1.7e-3 0.780 8.3e-4 13 Click to see details
GSE38974 Chronic obstructive pulmonary disease 0.419 1.9e-2 0.454 1.1e-2 25 Click to see details
GSE21687 Ependynoma primary tumors -0.244 2.6e-2 -0.179 7.8e-2 64 Click to see details
GSE19350 CNS germ cell tumors -0.549 3.2e-2 -0.019 4.8e-1 12 Click to see details
GSE32688 Pancreatic cancer -0.275 6.4e-2 -0.306 4.4e-2 32 Click to see details
GSE28544 Breast cancer 0.292 8.3e-2 0.392 2.9e-2 24 Click to see details
GSE21032 Prostate cancer 0.12 1.4e-1 0.055 3.1e-1 83 Click to see details
GSE17498 Multiple myeloma 0.139 2.0e-1 0.248 6.1e-2 40 Click to see details
GSE34608 Pulmonary tuberculosis and sarcoidosis 0.167 2.4e-1 0.215 1.8e-1 20 Click to see details
GSE15076 Monocyte-derived dendritic cells -0.165 4.0e-1 0.100 4.4e-1 5 Click to see details
GSE38226 Liver fibrosis -0.056 4.0e-1 -0.002 5.0e-1 21 Click to see details
GSE26953 Aortic valvular endothelial cells 0.048 4.1e-1 -0.028 4.5e-1 24 Click to see details
GSE42095 Differentiated embryonic stem cells 0.032 4.4e-1 -0.176 2.1e-1 23 Click to see details
GSE42095 Differentiated embryonic stem cells 0.032 4.4e-1 -0.176 2.1e-1 23 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
LUSC -0.968 0.02 -1.000 0.5 4 Click to see details
KICH -0.631 0.18 -0.800 0.1 4 Click to see details
LIHC 0.71 0.25 0.500 0.33 3 Click to see details
PRAD -0.104 0.27 -0.113 0.25 37 Click to see details
STAD 0.416 0.29 0.200 0.4 4 Click to see details
BRCA 0.256 0.31 0.257 0.31 6 Click to see details
KIRC -0.221 0.32 -0.393 0.19 7 Click to see details
HNSC -0.187 0.38 -0.400 0.25 5 Click to see details
KIRP -0.013 0.48 -0.165 0.3 13 Click to see details
KIRP -0.013 0.48 -0.165 0.3 13 Click to see details
KIRP -0.013 0.48 -0.165 0.3 13 Click to see details
KIRP -0.013 0.48 -0.165 0.3 13 Click to see details
KIRP -0.013 0.48 -0.165 0.3 13 Click to see details
KIRP -0.013 0.48 -0.165 0.3 13 Click to see details
162 hsa-miR-106a-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT056049 MLLT10 MLLT10, histone lysine methyltransferase DOT1L cofactor 2 2
MIRT065618 CLIC4 chloride intracellular channel 4 2 4
MIRT071648 DICER1 dicer 1, ribonuclease III 2 4
MIRT081712 ZNF507 zinc finger protein 507 2 2
MIRT093589 SPCS3 signal peptidase complex subunit 3 2 2
MIRT094223 G3BP2 G3BP stress granule assembly factor 2 2 2
MIRT125225 KLHL15 kelch like family member 15 2 6
MIRT169562 PNRC1 proline rich nuclear receptor coactivator 1 2 2
MIRT179227 KMT2A lysine methyltransferase 2A 2 2
MIRT180842 RPRD2 regulation of nuclear pre-mRNA domain containing 2 2 2
MIRT248803 SESN2 sestrin 2 2 2
MIRT257843 FAM46A family with sequence similarity 46 member A 2 2
MIRT261799 BUB3 BUB3, mitotic checkpoint protein 2 2
MIRT368750 CDADC1 cytidine and dCMP deaminase domain containing 1 2 2
MIRT448814 FKBP1A FK506 binding protein 1A 2 4
MIRT448950 CDK19 cyclin dependent kinase 19 2 2
MIRT452980 CABP4 calcium binding protein 4 2 2
MIRT454110 MRPL52 mitochondrial ribosomal protein L52 2 2
MIRT456599 CHML CHM like, Rab escort protein 2 2 2
MIRT461652 G6PC glucose-6-phosphatase catalytic subunit 2 2
MIRT464838 RPS27A ribosomal protein S27a 2 12
MIRT469511 RBFOX2 RNA binding protein, fox-1 homolog 2 2 8
MIRT471103 PHLDA2 pleckstrin homology like domain family A member 2 2 2
MIRT475451 HSPA8 heat shock protein family A (Hsp70) member 8 2 6
MIRT478236 DDX3X DEAD-box helicase 3, X-linked 2 4
MIRT480179 CALM2 calmodulin 2 2 8
MIRT481376 ATG12 autophagy related 12 2 2
MIRT495841 PLXDC1 plexin domain containing 1 2 2
MIRT498772 PARP15 poly(ADP-ribose) polymerase family member 15 2 4
MIRT502394 GATA6 GATA binding protein 6 2 8
MIRT504543 ZNF417 zinc finger protein 417 2 6
MIRT504953 ZNRF2 zinc and ring finger 2 2 6
MIRT505044 ZNF226 zinc finger protein 226 2 2
MIRT505285 TRIM66 tripartite motif containing 66 2 6
MIRT508006 BCAT1 branched chain amino acid transaminase 1 2 4
MIRT508372 SPTBN2 spectrin beta, non-erythrocytic 2 2 4
MIRT509026 PALM2-AKAP2 PALM2-AKAP2 readthrough 2 2
MIRT509045 AKAP2 A-kinase anchoring protein 2 2 2
MIRT509640 ZNF354B zinc finger protein 354B 2 10
MIRT512961 KMO kynurenine 3-monooxygenase 2 4
MIRT517859 NCAPD2 non-SMC condensin I complex subunit D2 2 4
MIRT517944 TRIM59 tripartite motif containing 59 2 2
MIRT525900 BUB1 BUB1 mitotic checkpoint serine/threonine kinase 2 2
MIRT529446 SLC28A2 solute carrier family 28 member 2 2 2
MIRT531095 PEX13 peroxisomal biogenesis factor 13 2 2
MIRT534557 RRAS2 RAS related 2 2 2
MIRT537004 GTF2A1 general transcription factor IIA subunit 1 2 2
MIRT538407 COX20 COX20, cytochrome c oxidase assembly factor 2 2
MIRT540635 SUMO1 small ubiquitin-like modifier 1 2 2
MIRT546660 RPS6KA5 ribosomal protein S6 kinase A5 2 2
MIRT547958 HIGD1A HIG1 hypoxia inducible domain family member 1A 2 4
MIRT552022 DNAJC10 DnaJ heat shock protein family (Hsp40) member C10 2 2
MIRT554238 SLBP stem-loop binding protein 2 2
MIRT555287 PPP6R1 protein phosphatase 6 regulatory subunit 1 2 2
MIRT556139 MFF mitochondrial fission factor 2 2
MIRT556419 LONRF3 LON peptidase N-terminal domain and ring finger 3 2 2
MIRT557258 HMGXB4 HMG-box containing 4 2 2
MIRT557318 HIF1A hypoxia inducible factor 1 alpha subunit 2 2
MIRT557774 FRS2 fibroblast growth factor receptor substrate 2 2 2
MIRT559634 AKAP10 A-kinase anchoring protein 10 2 2
MIRT561616 SESN3 sestrin 3 2 2
MIRT566174 PURA purine rich element binding protein A 2 2
MIRT567183 IGFBP5 insulin like growth factor binding protein 5 2 2
MIRT611357 LARP4B La ribonucleoprotein domain family member 4B 2 2
MIRT616553 ZNF512B zinc finger protein 512B 2 2
MIRT617308 FAM9C family with sequence similarity 9 member C 2 2
MIRT624899 AAGAB alpha and gamma adaptin binding protein 2 2
MIRT627008 FIG4 FIG4 phosphoinositide 5-phosphatase 2 2
MIRT627071 SF3A1 splicing factor 3a subunit 1 2 2
MIRT628271 CYB5D1 cytochrome b5 domain containing 1 2 2
MIRT629231 CINP cyclin dependent kinase 2 interacting protein 2 2
MIRT629403 ADM2 adrenomedullin 2 2 2
MIRT629580 RFC2 replication factor C subunit 2 2 2
MIRT629631 WDR31 WD repeat domain 31 2 2
MIRT629796 GPR82 G protein-coupled receptor 82 2 2
MIRT629870 NOM1 nucleolar protein with MIF4G domain 1 2 2
MIRT629916 POLR2D RNA polymerase II subunit D 2 2
MIRT629979 NARS asparaginyl-tRNA synthetase 2 2
MIRT630038 TERF2 telomeric repeat binding factor 2 2 2
MIRT630057 NIP7 NIP7, nucleolar pre-rRNA processing protein 2 2
MIRT630151 ZBTB8A zinc finger and BTB domain containing 8A 2 2
MIRT630245 SMTNL2 smoothelin like 2 2 2
MIRT630274 PSMB5 proteasome subunit beta 5 2 2
MIRT630344 NKAP NFKB activating protein 2 2
MIRT630493 CYP20A1 cytochrome P450 family 20 subfamily A member 1 2 2
MIRT631628 ZNF383 zinc finger protein 383 2 2
MIRT632467 RPS15A ribosomal protein S15a 2 2
MIRT632509 RAB11FIP1 RAB11 family interacting protein 1 2 2
MIRT632591 PDP2 pyruvate dehyrogenase phosphatase catalytic subunit 2 2 2
MIRT632989 DUSP18 dual specificity phosphatase 18 2 2
MIRT633077 CXorf21 chromosome X open reading frame 21 2 2
MIRT635044 MYH11 myosin heavy chain 11 2 2
MIRT636646 CDK4 cyclin dependent kinase 4 2 2
MIRT637185 ROMO1 reactive oxygen species modulator 1 2 2
MIRT637918 LILRA2 leukocyte immunoglobulin like receptor A2 2 2
MIRT642640 PTGR2 prostaglandin reductase 2 2 2
MIRT644231 SLC35E3 solute carrier family 35 member E3 2 2
MIRT644659 TMCO1 transmembrane and coiled-coil domains 1 2 2
MIRT645084 SLC35E2B solute carrier family 35 member E2B 2 2
MIRT645985 ACP6 acid phosphatase 6, lysophosphatidic 2 2
MIRT646980 SCARB1 scavenger receptor class B member 1 2 2
MIRT647421 ODF4 outer dense fiber of sperm tails 4 2 2
MIRT648322 PLIN1 perilipin 1 2 2
MIRT648506 PIGG phosphatidylinositol glycan anchor biosynthesis class G 2 2
MIRT651460 XIAP X-linked inhibitor of apoptosis 2 2
MIRT656548 LZIC leucine zipper and CTNNBIP1 domain containing 2 2
MIRT657371 HMGB1 high mobility group box 1 2 2
MIRT660828 AGO3 argonaute 3, RISC catalytic component 2 2
MIRT660916 ADAM19 ADAM metallopeptidase domain 19 2 2
MIRT661232 ARL17B ADP ribosylation factor like GTPase 17B 2 2
MIRT662840 OMD osteomodulin 2 2
MIRT662902 MED18 mediator complex subunit 18 2 2
MIRT663518 MASTL microtubule associated serine/threonine kinase like 2 2
MIRT663537 CCR6 C-C motif chemokine receptor 6 2 2
MIRT664345 C16orf45 chromosome 16 open reading frame 45 2 2
MIRT666074 SSTR2 somatostatin receptor 2 2 2
MIRT667219 NFE2L1 nuclear factor, erythroid 2 like 1 2 2
MIRT667756 KDELR1 KDEL endoplasmic reticulum protein retention receptor 1 2 2
MIRT668647 DYM dymeclin 2 2
MIRT671471 FLYWCH2 FLYWCH family member 2 2 2
MIRT671488 SLC38A9 solute carrier family 38 member 9 2 2
MIRT671917 PLEKHS1 pleckstrin homology domain containing S1 2 4
MIRT672285 GP2 glycoprotein 2 2 2
MIRT674022 ANKRD9 ankyrin repeat domain 9 2 2
MIRT674212 FAM120AOS family with sequence similarity 120A opposite strand 2 2
MIRT674510 PRR23A proline rich 23A 2 2
MIRT675095 SNTB2 syntrophin beta 2 2 2
MIRT675261 ZNF431 zinc finger protein 431 2 2
MIRT680630 KIAA1456 KIAA1456 2 2
MIRT681609 F2RL2 coagulation factor II thrombin receptor like 2 2 2
MIRT681919 KAT7 lysine acetyltransferase 7 2 2
MIRT682042 MRPS10 mitochondrial ribosomal protein S10 2 2
MIRT682055 B4GALT7 beta-1,4-galactosyltransferase 7 2 4
MIRT683756 CPE carboxypeptidase E 2 2
MIRT690233 CENPK centromere protein K 2 2
MIRT699167 SMAD2 SMAD family member 2 2 2
MIRT699905 RUNDC1 RUN domain containing 1 2 2
MIRT704401 CTPS1 CTP synthase 1 2 2
MIRT706252 MKLN1 muskelin 1 2 2
MIRT708876 MOCS2 molybdenum cofactor synthesis 2 2 2
MIRT710788 IFNLR1 interferon lambda receptor 1 2 2
MIRT711947 SLC7A14 solute carrier family 7 member 14 2 2
MIRT712587 ADCYAP1 adenylate cyclase activating polypeptide 1 2 2
MIRT713335 KLRD1 killer cell lectin like receptor D1 2 2
MIRT713901 IGF2R insulin like growth factor 2 receptor 2 2
MIRT714079 ZNF532 zinc finger protein 532 2 2
MIRT714881 GOLPH3 golgi phosphoprotein 3 2 2
MIRT715190 FKTN fukutin 2 2
MIRT717798 FAM114A1 family with sequence similarity 114 member A1 2 2
MIRT721434 ARPC4 actin related protein 2/3 complex subunit 4 2 2
MIRT722777 PDE3A phosphodiesterase 3A 2 2
MIRT723415 FAM208B family with sequence similarity 208 member B 2 2
MIRT732545 AURKA aurora kinase A 1 0
MIRT732549 MYCN MYCN proto-oncogene, bHLH transcription factor 1 0
MIRT733122 YAP1 Yes associated protein 1 3 0
MIRT733238 VEGFA vascular endothelial growth factor A 1 0
MIRT733725 TGFB1 transforming growth factor beta 1 2 0
MIRT733728 NOTCH1 notch 1 2 0
MIRT733829 RUNX2 runt related transcription factor 2 1 0
MIRT733830 BMP2 bone morphogenetic protein 2 1 0
MIRT736953 SMAD7 SMAD family member 7 3 0
MIRT737029 FOXQ1 forkhead box Q1 3 0
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-106a Cisplatin approved 84093 Quantitative real-time PCR ovarian cancer cells 24348845 2014 up-regulated
miR-106a Cisplatin approved 84093 Microarray ovarian cancer 19237188 2009 down-regulated
miR-106a Vorinostat (SAHA) approved 5311 Microarray A549 human non-small cell lung cancer cells 19513533 2009 down-regulated
miR-106a Diethylstilbestrol approved 448537 Microarray mammosphere-derived epithelial cells (MDEC) 19549897 2009 down-regulated
miR-106a Diethylstilbestrol approved 448537 Quantitative real-time PCR mammosphere-derived epithelial cells (MDEC) 19549897 2009 down-regulated
miR-106a 5-Fluorouracil approved 3385 Microarray HCT-8 colon cancer cell line 19956872 2010 down-regulated
miR-106a Bisphenol A NULL 6623 Microarray immortalized cytotrophoblast cell lines HTR-8 20417706 2010 up-regulated
miR-106a Formaldehyde NULL 712 Microarray Human lung epithelial cells (A549) 21147603 2011 down-regulated
miR-106a Bicalutamide approved 2375 Microarray prostate 22674191 2012 down-regulated
miR-106a Narangin NULL 442428 Microarray apoE−/− mice 22253797 2012 up-regulated
miR-106a Tamoxifen approved 2733526 Microarray rat liver 17343880 2007 up-regulated
miR-106a Tamoxifen approved 2733526 Quantitative real-time PCR rat liver 17343880 2007 up-regulated
miR-106a 17beta-estradiol (E2) approved 5757 Microarray rat breast 17700064 2007 up-regulated
miR-106a 17beta-estradiol (E2) approved 5757 Quantitative real-time PCR rat breast 17700064 2007 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-106a-3p Docetaxel 148124 NSC628503 approved resistant High Breast Cancer cell line (BT-20, BT-474, BT-549, CAMA-1, HCC1143, HCC1395, HCC1569, HCC1806, HCC-1937, HCC1954, HCC202, HCC38, HCC70, Hs578T, MCF-7, MDA-MB-175VII, MDA-MB-231, MDA-MB-361, MDA-MB-415, MDA-MB-436, MDA-MB-468, SKBR3, T47D, UACC812, EVSA-T, MPE-600 , SK-BR-
hsa-miR-106a-3p Paclitaxel 36314 NSC125973 approved resistant High Breast Cancer cell line (BT-20, BT-474, BT-549, CAMA-1, HCC1143, HCC1395, HCC1569, HCC1806, HCC-1937, HCC1954, HCC202, HCC38, HCC70, Hs578T, MCF-7, MDA-MB-175VII, MDA-MB-231, MDA-MB-361, MDA-MB-415, MDA-MB-436, MDA-MB-468, SKBR3, T47D, UACC812, EVSA-T, MPE-600 , SK-BR-
hsa-miR-106a-3p Apatinib 11315474 NSC772886 resistant Low Gastric Cancer cell line (SGC-7901)
hsa-miR-106a-3p Sunitinib 5329102 NSC750690 approved resistant tissue (CardB)
hsa-miR-106a-3p Cisplatin 5460033 NSC119875 approved resistant cell line (IGROV-1)
hsa-miR-106a-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-106a-3p Neoadjuvant chemotherapy sensitive tissue (breast cancer)
hsa-miR-106a-3p Paclitaxel/Docetaxel/Vinorelbine/Doxorubicin/Etoposide resistant cell line (Bads-200)

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