miRTarBase - #MIRT035894


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pre-miRNA Information
pre-miRNA hsa-mir-1303   
Genomic Coordinates chr5: 154685776 - 154685861
Synonyms MIRN1303, hsa-mir-1303, MIR1303
Description Homo sapiens miR-1303 stem-loop
Comment None
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-1303
Sequence 52| UUUAGAGACGGGGUCUUGCUCU |73
Evidence Experimental
Experiments Illumina
Editing Events in miRNAs
Modification Type Position on miR Chromosome DNA Strand Genomic Position (hg38) List of PMIDs Variant details
A-to-I 4 5 + 154685830 23291724, 29233923 MiREDiBase
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs370437195 6 dbSNP
rs1195001383 7 dbSNP
rs546614687 8 dbSNP
rs762579883 9 dbSNP
rs766041486 10 dbSNP
rs751079975 12 dbSNP
rs888516744 13 dbSNP
rs566454487 14 dbSNP
rs766973220 15 dbSNP
rs1474274822 17 dbSNP
rs753222192 18 dbSNP
rs1230907999 19 dbSNP
rs756552638 22 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol PSME4   
Synonyms PA200
Description proteasome activator subunit 4
Transcript NM_014614   
Expression
Putative miRNA Targets on PSME4
3'UTR of PSME4
(miRNA target sites are highlighted)		 
>PSME4|NM_014614|3'UTR
   1 AAAGATGACTAGTCCTCACTTCAGGCTCTTTTCATCAAAAATTCCACACCCTCAGGTACCATCTGTGGTGGCTCTCTGCA
  81 AGTTTTAAAACTGCCTCTGCTGAGCTCTCATCATTTTGGTGGTTTCTGTGTTAGATCTCGTTAGTCTGCATTCCACAGCT
 161 TCTCAGTTGCCATTTGATTTCCCAACTTGTCCGGAAGTGTTTCCAGAATACTGATCACTTTTTTTTTTTGAGGCATCTGA
 241 CAAAGTCACAAAGTCTCAGACTAGAAATAATTACCCAGTATGATCATGGCATCCAAGACCAGAGTCTCAGAACTCATTAA
 321 GAAACAGTTTACTTGGAATGGAGAATACCCATCTGTAATACAGGTCCTGTCATTTCATTCATCTCAAATTATTTTGAATT
 401 CTTCCCAAATGGCTGCTGGATTTAGGTGGTAATAGGGGCTGTGGGCCATAAATCTGAAGCCTTGAGAACCTTGGGTCTGG
 481 AGAGCCATGAAGAGGGAAGGAAAAGAGGGCAAGTCCTGAACCTAACCAATGACCTGATGGATTGCTCGACCAAGACACAG
 561 AAGTGAAGTCTGTGTCTGTGCACTTCCCACAGACTGGAGTTTTTGGTGCTGAATAGAGCCAGTTGCTAAAAAATTGGGGG
 641 TTTGGTGAAGAAATCTGATTGTTGTGTGTATTCAATGTGTGATTTTAAAAATAAACAGCAACAACAATAAAAACCCTGAC
 721 TGGCTGTTTTTTCCCTGTATTCTTTACAACTATTTTTTGACCCTCTGAAAATTATTATACTTCACCTAAATGGAAGACTG
 801 CTGTGTTTGTGGAAATTTTGTAATTTTTTAATTTATTTTATTCTCTCTCCCTTTTTATTTTGCCTGCAGAATCGTTGAGA
 881 GACTAATAAGGCTTAATATTTAATTGATTTGTTTAATATGTTATATAAATGTAAAAGAGTGTATAAACTGTAGAGATAGC
 961 ATTGGCAAGACATTGTACAGATGCAACCTTTTACACAACATCATTGTGTAATTTGTAAAGATTCACGTGTAGTTCTTTAT
1041 TATAGTGATTTTGGGCTTTGTACCCACTGAATGCCATTTTTTGTGTTTTTAAATTATTTTCTTTATCTTGTTACAAAAAC
1121 TGAGATGTGGGGTTTTTTTTTTTTCAGTTCACTTATCATTAGAATGTCTGAACTTTTATGTAACATTTTTGTGTGCATCT
1201 CTCAATGCTAACACCACATGTTTGCCTATGACAAGTTTATAGAGTGAAAGGTATCTTCTGGGTTGAAATAATTCACAAAT
1281 TGGTGAATGTCATCTTGCAACACACCCTGTACAGTCTTCCTTAAAGGAACACTACAGTATATTTTTAGTATCTACATGCT
1361 GAATGACTGAATACAGACCTAAGCACAGCAGTGGTCCTGGTACAGTATTTAAGTGTCGGCATACACAGGCGTAATCCCTG
1441 TATAAAGTAGTGCCAAACTGATTTCAGTTGTGTAACTAGTTTAAAACCCAATAAATGGATTCTTTTTAACAAA
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' ucUCGUUCUGGGGCAGAGAUUu 5'
            || || | ||| ||| ||| 
Target 5' ggAG-AATA-CCCATCTGTAAt 3'
 340 - 359 126.00 -12.20
2 
miRNA  3' ucucGUUCUGG-GGCAGAGAUUu 5'
              |||||||   ||||| :| 
Target 5' catcCAAGACCAGAGTCTCAGAa 3'
 290 - 312 118.00 -18.80
3 
miRNA  3' ucucguUCUGGGGCAGAGAUUu 5'
                ||| || ||: |||| 
Target 5' ctgaatAGAGCCAGTTGCTAAa 3'
 609 - 630 116.00 -10.40
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN1240138 11 COSMIC
COSN30621296 35 COSMIC
COSN9379148 531 COSMIC
COSN31582968 723 COSMIC
COSN27311510 729 COSMIC
COSN1240137 730 COSMIC
COSN31481762 896 COSMIC
COSN31583222 950 COSMIC
COSN9379147 1040 COSMIC
COSN23016008 1076 COSMIC
COSN25006018 1166 COSMIC
COSN7805911 1340 COSMIC
COSN31481705 1356 COSMIC
COSN26549120 1361 COSMIC
COSN31540600 1403 COSMIC
COSN31563556 1470 COSMIC
COSN26677336 1499 COSMIC
COSN22819612 1500 COSMIC
COSN31589884 1504 COSMIC
COSN31536633 1643 COSMIC
COSN20096650 1644 COSMIC
COSN15202817 1877 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1179900880 3 dbSNP
rs1347760852 9 dbSNP
rs752299461 10 dbSNP
rs368455428 15 dbSNP
rs761149902 17 dbSNP
rs773747604 18 dbSNP
rs772538610 22 dbSNP
rs184196276 23 dbSNP
rs774917597 29 dbSNP
rs768620716 32 dbSNP
rs1227961987 39 dbSNP
rs1374451947 42 dbSNP
rs1281674637 43 dbSNP
rs1321651089 51 dbSNP
rs1357449783 55 dbSNP
rs1355116786 58 dbSNP
rs896048725 62 dbSNP
rs1016284999 72 dbSNP
rs1240071297 73 dbSNP
rs569183915 73 dbSNP
rs940071231 73 dbSNP
rs1294617898 79 dbSNP
rs984418648 80 dbSNP
rs1363185831 86 dbSNP
rs559687052 87 dbSNP
rs1004373681 91 dbSNP
rs888647992 98 dbSNP
rs1415471902 99 dbSNP
rs1367279540 107 dbSNP
rs926812622 109 dbSNP
rs1170996273 112 dbSNP
rs979784261 121 dbSNP
rs773110969 122 dbSNP
rs1460857906 125 dbSNP
rs1341607094 126 dbSNP
rs1450890673 128 dbSNP
rs1391598337 143 dbSNP
rs181885016 144 dbSNP
rs1024095083 156 dbSNP
rs932366732 157 dbSNP
rs899604055 160 dbSNP
rs955754416 170 dbSNP
rs1195303342 172 dbSNP
rs1189617352 176 dbSNP
rs1249656072 179 dbSNP
rs1033327359 182 dbSNP
rs1040662572 185 dbSNP
rs943729137 192 dbSNP
rs1255096886 193 dbSNP
rs1474785329 194 dbSNP
rs1193886758 199 dbSNP
rs1000128702 208 dbSNP
rs1452670497 209 dbSNP
rs1459974305 232 dbSNP
rs1166794027 235 dbSNP
rs1402384418 237 dbSNP
rs1267467968 238 dbSNP
rs1416629685 239 dbSNP
rs805379 242 dbSNP
rs549172728 243 dbSNP
rs1049590321 245 dbSNP
rs1401022680 250 dbSNP
rs998235686 252 dbSNP
rs901249957 257 dbSNP
rs747896211 261 dbSNP
rs529091067 269 dbSNP
rs936514101 274 dbSNP
rs1347267912 283 dbSNP
rs1202084779 285 dbSNP
rs1278129524 288 dbSNP
rs1485185463 291 dbSNP
rs1194136056 296 dbSNP
rs925068550 302 dbSNP
rs190566844 303 dbSNP
rs1192082198 307 dbSNP
rs547915003 309 dbSNP
rs1478739636 312 dbSNP
rs1172274758 313 dbSNP
rs938269640 314 dbSNP
rs1300417171 328 dbSNP
rs150760026 328 dbSNP
rs916016785 329 dbSNP
rs992810913 334 dbSNP
rs1381831782 338 dbSNP
rs57518293 352 dbSNP
rs1332854475 353 dbSNP
rs960058169 358 dbSNP
rs1301088234 369 dbSNP
rs1347042924 370 dbSNP
rs1217335356 374 dbSNP
rs1287858323 385 dbSNP
rs1484801241 389 dbSNP
rs554900385 392 dbSNP
rs1435738596 393 dbSNP
rs982239339 401 dbSNP
rs1452766547 404 dbSNP
rs1015842152 424 dbSNP
rs949596579 425 dbSNP
rs916970535 439 dbSNP
rs988604357 442 dbSNP
rs955866643 449 dbSNP
rs1453521841 451 dbSNP
rs1004913780 460 dbSNP
rs1294296800 462 dbSNP
rs1393166424 474 dbSNP
rs564970745 475 dbSNP
rs978634131 480 dbSNP
rs1431826325 481 dbSNP
rs1240762783 488 dbSNP
rs952996786 489 dbSNP
rs1393709821 490 dbSNP
rs1173350585 491 dbSNP
rs1314872828 492 dbSNP
rs1027536367 494 dbSNP
rs1478658605 496 dbSNP
rs996987450 505 dbSNP
rs559525570 507 dbSNP
rs546236551 508 dbSNP
rs1007841321 511 dbSNP
rs531854631 512 dbSNP
rs1211507622 514 dbSNP
rs1251795110 519 dbSNP
rs1457862455 528 dbSNP
rs1180997078 532 dbSNP
rs1249071970 533 dbSNP
rs998017106 536 dbSNP
rs1165915025 537 dbSNP
rs1370628830 544 dbSNP
rs562844096 545 dbSNP
rs901029273 549 dbSNP
rs1052110079 559 dbSNP
rs1250421357 563 dbSNP
rs1205481109 567 dbSNP
rs1401066707 574 dbSNP
rs1483821566 576 dbSNP
rs1016066183 581 dbSNP
rs577348843 582 dbSNP
rs936550830 583 dbSNP
rs1277956003 589 dbSNP
rs1390804816 591 dbSNP
rs1218387366 595 dbSNP
rs1313152263 599 dbSNP
rs925237920 606 dbSNP
rs779198416 609 dbSNP
rs888406664 611 dbSNP
rs1272177146 613 dbSNP
rs1276484763 620 dbSNP
rs1317946120 623 dbSNP
rs542812437 649 dbSNP
rs1044897773 651 dbSNP
rs1249174434 657 dbSNP
rs1480590528 660 dbSNP
rs1258678503 664 dbSNP
rs574215310 672 dbSNP
rs938048631 676 dbSNP
rs947894250 696 dbSNP
rs1424614855 697 dbSNP
rs1349990439 701 dbSNP
rs141361218 703 dbSNP
rs545203627 704 dbSNP
rs577697358 721 dbSNP
rs1461389155 727 dbSNP
rs1373824802 728 dbSNP
rs960067583 734 dbSNP
rs1292217033 741 dbSNP
rs1340731490 741 dbSNP
rs1357075707 741 dbSNP
rs398080264 741 dbSNP
rs56006630 741 dbSNP
rs796297892 741 dbSNP
rs1312654523 747 dbSNP
rs557754828 752 dbSNP
rs1211385497 753 dbSNP
rs1283129889 756 dbSNP
rs908503000 756 dbSNP
rs988941958 757 dbSNP
rs982813943 763 dbSNP
rs934427672 764 dbSNP
rs749508523 768 dbSNP
rs752933259 770 dbSNP
rs1470047650 772 dbSNP
rs778255853 774 dbSNP
rs1423182206 775 dbSNP
rs953051752 778 dbSNP
rs1433865406 784 dbSNP
rs1473386968 785 dbSNP
rs1176651570 789 dbSNP
rs1377199552 791 dbSNP
rs780060847 802 dbSNP
rs1432567948 817 dbSNP
rs1027215475 818 dbSNP
rs1312046755 820 dbSNP
rs772745163 821 dbSNP
rs996956343 825 dbSNP
rs1254880921 833 dbSNP
rs563444234 844 dbSNP
rs1019319436 847 dbSNP
rs779767522 856 dbSNP
rs1007892339 861 dbSNP
rs1219313580 862 dbSNP
rs892224435 863 dbSNP
rs569129312 864 dbSNP
rs1203366840 866 dbSNP
rs1328325597 870 dbSNP
rs1052501995 872 dbSNP
rs185641046 876 dbSNP
rs1000556412 886 dbSNP
rs535404318 887 dbSNP
rs1346329416 891 dbSNP
rs1289097882 893 dbSNP
rs1371861165 894 dbSNP
rs1028224870 898 dbSNP
rs756244424 903 dbSNP
rs1287149855 908 dbSNP
rs976679392 912 dbSNP
rs1213844712 915 dbSNP
rs1241774798 917 dbSNP
rs1488810018 918 dbSNP
rs1195591450 925 dbSNP
rs965563385 926 dbSNP
rs535286607 939 dbSNP
rs1172988820 941 dbSNP
rs1380629288 943 dbSNP
rs1353812662 944 dbSNP
rs1004671788 954 dbSNP
rs1344255972 961 dbSNP
rs1436831097 969 dbSNP
rs1368195116 972 dbSNP
rs1440783970 974 dbSNP
rs1310652729 981 dbSNP
rs1353237376 982 dbSNP
rs755519201 992 dbSNP
rs1222428038 998 dbSNP
rs9894 999 dbSNP
rs1449023538 1005 dbSNP
rs1322539545 1012 dbSNP
rs1361305570 1016 dbSNP
rs888533358 1017 dbSNP
rs1316653891 1018 dbSNP
rs1457198910 1027 dbSNP
rs1389969387 1037 dbSNP
rs1159270181 1039 dbSNP
rs1433727056 1040 dbSNP
rs947862243 1045 dbSNP
rs1233396853 1049 dbSNP
rs1458309357 1051 dbSNP
rs1415007050 1055 dbSNP
rs1471008784 1058 dbSNP
rs576511332 1059 dbSNP
rs566684253 1063 dbSNP
rs905233942 1065 dbSNP
rs938734310 1072 dbSNP
rs908640365 1076 dbSNP
rs747359143 1078 dbSNP
rs1391584444 1079 dbSNP
rs1439557782 1086 dbSNP
rs1332552434 1092 dbSNP
rs1338062052 1092 dbSNP
rs547556309 1093 dbSNP
rs1440723334 1095 dbSNP
rs1239008577 1097 dbSNP
rs1190705290 1101 dbSNP
rs1464387272 1108 dbSNP
rs1013806945 1110 dbSNP
rs1268621097 1113 dbSNP
rs1210498579 1116 dbSNP
rs527748663 1117 dbSNP
rs750993286 1120 dbSNP
rs571428784 1121 dbSNP
rs931357962 1125 dbSNP
rs920168407 1127 dbSNP
rs1275283401 1133 dbSNP
rs975675705 1142 dbSNP
rs1179621312 1146 dbSNP
rs1232066061 1147 dbSNP
rs892587428 1149 dbSNP
rs1189572501 1155 dbSNP
rs1415214410 1156 dbSNP
rs1229153833 1165 dbSNP
rs1381553649 1166 dbSNP
rs964265087 1169 dbSNP
rs1167976361 1173 dbSNP
rs1434741417 1184 dbSNP
rs768100617 1186 dbSNP
rs750123860 1190 dbSNP
rs1460337037 1195 dbSNP
rs925721770 1206 dbSNP
rs1291608012 1208 dbSNP
rs780661692 1210 dbSNP
rs1355049821 1226 dbSNP
rs1163399630 1229 dbSNP
rs1042851681 1231 dbSNP
rs932291943 1232 dbSNP
rs1405623782 1234 dbSNP
rs1193949960 1237 dbSNP
rs920949807 1238 dbSNP
rs1485836202 1250 dbSNP
rs551313842 1253 dbSNP
rs543655992 1261 dbSNP
rs574718657 1263 dbSNP
rs1165949911 1271 dbSNP
rs1448705668 1283 dbSNP
rs1193504414 1304 dbSNP
rs1374245786 1307 dbSNP
rs554826352 1308 dbSNP
rs1167775580 1318 dbSNP
rs1376610475 1319 dbSNP
rs903557392 1325 dbSNP
rs531606108 1329 dbSNP
rs556836050 1334 dbSNP
rs1023556926 1340 dbSNP
rs805378 1341 dbSNP
rs1382965303 1347 dbSNP
rs1320553899 1351 dbSNP
rs1324718658 1354 dbSNP
rs1226787507 1360 dbSNP
rs1222348343 1361 dbSNP
rs763876846 1365 dbSNP
rs1348486631 1367 dbSNP
rs1056284666 1370 dbSNP
rs982634478 1373 dbSNP
rs1485235285 1376 dbSNP
rs192448165 1381 dbSNP
rs1205313096 1384 dbSNP
rs762938978 1385 dbSNP
rs1002254696 1387 dbSNP
rs969334310 1388 dbSNP
rs1024933434 1389 dbSNP
rs1014219295 1390 dbSNP
rs887176559 1397 dbSNP
rs1454658319 1403 dbSNP
rs1343403936 1414 dbSNP
rs892710330 1417 dbSNP
rs1381921993 1425 dbSNP
rs1326655953 1426 dbSNP
rs1373340326 1427 dbSNP
rs1300234190 1436 dbSNP
rs1439367611 1439 dbSNP
rs1442982058 1439 dbSNP
rs1053155352 1441 dbSNP
rs1001022385 1444 dbSNP
rs1262332966 1448 dbSNP
rs145128142 1451 dbSNP
rs187770548 1452 dbSNP
rs1042804406 1461 dbSNP
rs1253060144 1477 dbSNP
rs11125517 1478 dbSNP
rs1436496617 1480 dbSNP
rs919888021 1494 dbSNP
rs975392917 1495 dbSNP
rs765365793 1497 dbSNP
rs912834844 1505 dbSNP
rs184246396 1513 dbSNP
rs1161715607 1516 dbSNP
rs148263226 1522 dbSNP
rs943743044 1537 dbSNP
rs698855 1538 dbSNP
rs1459945401 1540 dbSNP
rs759178991 1543 dbSNP
rs1366804592 1549 dbSNP
rs979245541 1549 dbSNP
rs1391964862 1550 dbSNP
rs1308843961 1554 dbSNP
rs538320656 1556 dbSNP
rs1431401402 1557 dbSNP
rs1227349630 1581 dbSNP
rs1424296893 1581 dbSNP
rs1273458146 1587 dbSNP
rs952551047 1588 dbSNP
rs1023274066 1593 dbSNP
rs1191860314 1594 dbSNP
rs1272051708 1594 dbSNP
rs919775739 1613 dbSNP
rs1179502427 1616 dbSNP
rs766924440 1616 dbSNP
rs776930793 1620 dbSNP
rs1418884399 1632 dbSNP
rs969450488 1633 dbSNP
rs557891770 1636 dbSNP
rs544190329 1643 dbSNP
rs1164301816 1644 dbSNP
rs1483630044 1644 dbSNP
rs1462417478 1645 dbSNP
rs1011934859 1654 dbSNP
rs63340360 1655 dbSNP
rs11349247 1656 dbSNP
rs1254089120 1656 dbSNP
rs1293462845 1656 dbSNP
rs1408990701 1656 dbSNP
rs398080263 1656 dbSNP
rs1231249186 1657 dbSNP
rs1356959137 1657 dbSNP
rs1204758758 1658 dbSNP
rs1483493557 1661 dbSNP
rs1231143810 1666 dbSNP
rs1311346459 1666 dbSNP
rs1307621823 1671 dbSNP
rs866200555 1673 dbSNP
rs1207181102 1674 dbSNP
rs575353411 1684 dbSNP
rs1250134462 1689 dbSNP
rs1277249002 1689 dbSNP
rs1260139070 1690 dbSNP
rs1232459737 1702 dbSNP
rs1187566743 1715 dbSNP
rs1420260323 1720 dbSNP
rs191650771 1720 dbSNP
rs1430415986 1722 dbSNP
rs896383581 1725 dbSNP
rs1312132189 1726 dbSNP
rs776316378 1726 dbSNP
rs1025046682 1727 dbSNP
rs1034970923 1729 dbSNP
rs1013583970 1730 dbSNP
rs1429090383 1731 dbSNP
rs771104163 1732 dbSNP
rs555877135 1737 dbSNP
rs1369154179 1739 dbSNP
rs1301918791 1742 dbSNP
rs143038012 1745 dbSNP
rs1215829743 1746 dbSNP
rs1031239466 1747 dbSNP
rs1342070383 1761 dbSNP
rs566667210 1772 dbSNP
rs1370748120 1788 dbSNP
rs1282889617 1800 dbSNP
rs1484910510 1802 dbSNP
rs773780068 1808 dbSNP
rs553102230 1811 dbSNP
rs898599128 1812 dbSNP
rs115978586 1820 dbSNP
rs942728341 1824 dbSNP
rs1261207610 1830 dbSNP
rs80088152 1843 dbSNP
rs1464305588 1846 dbSNP
rs1358351815 1847 dbSNP
rs912802712 1852 dbSNP
rs1448759575 1855 dbSNP
rs571365318 1860 dbSNP
rs996381282 1867 dbSNP
rs772550942 1869 dbSNP
rs1432662738 1874 dbSNP
rs1434808288 1878 dbSNP
rs899582135 1883 dbSNP
rs1345404336 1892 dbSNP
rs1432545694 1896 dbSNP
rs149464546 1898 dbSNP
rs1442224316 1904 dbSNP
rs935496915 1916 dbSNP
rs924096623 1928 dbSNP
rs1181495868 1929 dbSNP
rs1219017299 1931 dbSNP
rs980019940 1937 dbSNP
rs967764727 1941 dbSNP
rs1184205585 1942 dbSNP
rs1267558444 1951 dbSNP
rs1473042446 1955 dbSNP
rs1194140418 1959 dbSNP
rs187531484 1962 dbSNP
rs1477033445 1964 dbSNP
rs1046948946 1965 dbSNP
rs931223215 1972 dbSNP
rs1402064863 1975 dbSNP
rs1483166111 1977 dbSNP
rs916355529 1987 dbSNP
rs748676539 2002 dbSNP
rs1436476250 2009 dbSNP
rs1256923632 2014 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions Flp-In T-REx 293-hAGO1 cells
Location of target site CDS
Original Description (Extracted from the article) ... Validation of interactions identified by CLASH suppports their reliability. ...

- Helwak A; Kudla G; Dudnakova T; Tollervey D, 2013, Cell.

Article - Helwak A; Kudla G; Dudnakova T; Tollervey D
- Cell, 2013
MicroRNAs (miRNAs) play key roles in gene regulation, but reliable bioinformatic or experimental identification of their targets remains difficult. To provide an unbiased view of human miRNA targets, we developed a technique for ligation and sequencing of miRNA-target RNA duplexes associated with human AGO1. Here, we report data sets of more than 18,000 high-confidence miRNA-mRNA interactions. The binding of most miRNAs includes the 5' seed region, but around 60% of seed interactions are noncanonical, containing bulged or mismatched nucleotides. Moreover, seed interactions are generally accompanied by specific, nonseed base pairing. 18% of miRNA-mRNA interactions involve the miRNA 3' end, with little evidence for 5' contacts, and some of these were functionally validated. Analyses of miRNA:mRNA base pairing showed that miRNA species systematically differ in their target RNA interactions, and strongly overrepresented motifs were found in the interaction sites of several miRNAs. We speculate that these affect the response of RISC to miRNA-target binding.
LinkOut: [PMID: 23622248]
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 0.44 6.6e-2 0.434 6.9e-2 13 Click to see details
GSE38226 Liver fibrosis -0.312 8.4e-2 0.048 4.2e-1 21 Click to see details
GSE32688 Pancreatic cancer 0.24 9.3e-2 0.195 1.4e-1 32 Click to see details
GSE42095 Differentiated embryonic stem cells 0.231 1.4e-1 0.230 1.5e-1 23 Click to see details
GSE38974 Chronic obstructive pulmonary disease 0.207 1.6e-1 0.341 4.8e-2 25 Click to see details
GSE28544 Breast cancer -0.052 4.0e-1 -0.130 2.7e-1 24 Click to see details
GSE26953 Aortic valvular endothelial cells 0.021 4.6e-1 0.138 2.6e-1 24 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
186 hsa-miR-1303 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT035871 SOAT1 sterol O-acyltransferase 1 1 1
MIRT035872 FHOD3 formin homology 2 domain containing 3 1 1
MIRT035873 RPL7A ribosomal protein L7a 1 1
MIRT035874 NCAPD2 non-SMC condensin I complex subunit D2 1 1
MIRT035875 RPS8 ribosomal protein S8 1 1
MIRT035876 AHNAK AHNAK nucleoprotein 1 1
MIRT035877 ACTB actin beta 1 1
MIRT035878 DEF8 differentially expressed in FDCP 8 homolog 1 1
MIRT035879 MET MET proto-oncogene, receptor tyrosine kinase 1 1
MIRT035880 MED13 mediator complex subunit 13 1 1
MIRT035881 FAT3 FAT atypical cadherin 3 1 1
MIRT035882 HUWE1 HECT, UBA and WWE domain containing 1, E3 ubiquitin protein ligase 1 1
MIRT035883 RPS16 ribosomal protein S16 1 1
MIRT035884 CDK6 cyclin dependent kinase 6 1 1
MIRT035885 GEMIN5 gem nuclear organelle associated protein 5 1 1
MIRT035886 PITRM1 pitrilysin metallopeptidase 1 1 1
MIRT035887 PRRC2A proline rich coiled-coil 2A 1 1
MIRT035888 KIAA0226 RUN and cysteine rich domain containing beclin 1 interacting protein 1 1
MIRT035889 MLLT6 MLLT6, PHD finger containing 1 1
MIRT035890 EIF3I eukaryotic translation initiation factor 3 subunit I 1 1
MIRT035891 FASN fatty acid synthase 1 1
MIRT035892 LEPREL4 prolyl 3-hydroxylase family member 4 (non-enzymatic) 1 1
MIRT035893 HSCB HscB mitochondrial iron-sulfur cluster cochaperone 1 1
MIRT035894 PSME4 proteasome activator subunit 4 1 1
MIRT035895 FRS2 fibroblast growth factor receptor substrate 2 1 1
MIRT035896 ZNF264 zinc finger protein 264 1 1
MIRT035897 HYLS1 HYLS1, centriolar and ciliogenesis associated 1 1
MIRT035898 USP54 ubiquitin specific peptidase 54 1 1
MIRT035899 L1TD1 LINE1 type transposase domain containing 1 1 1
MIRT035900 OR51E2 olfactory receptor family 51 subfamily E member 2 1 1
MIRT053762 CLDN18 claudin 18 3 1
MIRT060730 RPS3 ribosomal protein S3 2 2
MIRT083986 RAB22A RAB22A, member RAS oncogene family 2 2
MIRT098550 TBPL1 TATA-box binding protein like 1 2 6
MIRT134983 TWF1 twinfilin actin binding protein 1 2 4
MIRT136956 FNDC3A fibronectin type III domain containing 3A 2 2
MIRT222065 PURB purine rich element binding protein B 2 2
MIRT239574 UBN2 ubinuclein 2 2 4
MIRT261820 BUB3 BUB3, mitotic checkpoint protein 2 2
MIRT264698 C11ORF57 chromosome 11 open reading frame 57 2 4
MIRT308476 GXYLT2 glucoside xylosyltransferase 2 2 2
MIRT377481 NDUFB5 NADH:ubiquinone oxidoreductase subunit B5 2 2
MIRT442304 NEU3 neuraminidase 3 2 2
MIRT446083 SLC30A10 solute carrier family 30 member 10 2 2
MIRT449606 PRPF4 pre-mRNA processing factor 4 2 2
MIRT453767 NUCB1 nucleobindin 1 2 10
MIRT455603 SRSF3 serine and arginine rich splicing factor 3 2 2
MIRT455913 KIF2C kinesin family member 2C 2 2
MIRT460091 ZYG11B zyg-11 family member B, cell cycle regulator 2 4
MIRT460866 UBE2S ubiquitin conjugating enzyme E2 S 2 2
MIRT461339 NUP133 nucleoporin 133 2 2
MIRT463769 YOD1 YOD1 deubiquitinase 2 2
MIRT466368 THAP1 THAP domain containing 1 2 4
MIRT467168 SPTY2D1 SPT2 chromatin protein domain containing 1 2 2
MIRT468703 SDHD succinate dehydrogenase complex subunit D 2 2
MIRT469122 RNF126 ring finger protein 126 2 2
MIRT472426 NCBP2 nuclear cap binding protein subunit 2 2 4
MIRT479420 CDKN1B cyclin dependent kinase inhibitor 1B 2 8
MIRT484260 FAM177A1 family with sequence similarity 177 member A1 2 2
MIRT485468 IL6ST interleukin 6 signal transducer 2 10
MIRT490237 H2AFZ H2A histone family member Z 2 6
MIRT491002 ATF7IP activating transcription factor 7 interacting protein 2 2
MIRT492127 SUMO2 small ubiquitin-like modifier 2 2 2
MIRT499169 RBPJL recombination signal binding protein for immunoglobulin kappa J region like 2 2
MIRT499825 PCSK9 proprotein convertase subtilisin/kexin type 9 2 8
MIRT501794 NRAS NRAS proto-oncogene, GTPase 2 2
MIRT503441 GINS4 GINS complex subunit 4 2 4
MIRT503688 MAVS mitochondrial antiviral signaling protein 2 5
MIRT506926 IGDCC4 immunoglobulin superfamily DCC subclass member 4 2 6
MIRT511430 HOXA10 homeobox A10 2 6
MIRT512415 LAYN layilin 2 4
MIRT513791 NIPAL3 NIPA like domain containing 3 2 4
MIRT516163 NTMT1 N-terminal Xaa-Pro-Lys N-methyltransferase 1 2 4
MIRT516513 PARK2 parkin RBR E3 ubiquitin protein ligase 2 2
MIRT516915 HINFP histone H4 transcription factor 2 2
MIRT517102 NDUFV3 NADH:ubiquinone oxidoreductase subunit V3 2 2
MIRT517350 NLRP9 NLR family pyrin domain containing 9 2 2
MIRT518019 ABHD15 abhydrolase domain containing 15 2 2
MIRT520945 SRSF10 serine and arginine rich splicing factor 10 2 2
MIRT525250 RNF213 ring finger protein 213 2 2
MIRT530634 PPIC peptidylprolyl isomerase C 2 4
MIRT530671 CHRNB1 cholinergic receptor nicotinic beta 1 subunit 2 4
MIRT531563 ILDR1 immunoglobulin like domain containing receptor 1 2 2
MIRT538205 CYR61 cysteine rich angiogenic inducer 61 2 2
MIRT538419 COLEC10 collectin subfamily member 10 2 2
MIRT541964 ZNF485 zinc finger protein 485 2 2
MIRT543088 KNSTRN kinetochore localized astrin/SPAG5 binding protein 2 2
MIRT543257 ZNF662 zinc finger protein 662 2 2
MIRT543589 KIAA1549 KIAA1549 2 2
MIRT543955 RNF20 ring finger protein 20 2 2
MIRT544043 C9orf64 chromosome 9 open reading frame 64 2 4
MIRT548064 GIGYF1 GRB10 interacting GYF protein 1 2 2
MIRT548240 FBXW7 F-box and WD repeat domain containing 7 2 2
MIRT548442 EIF1AX eukaryotic translation initiation factor 1A, X-linked 2 2
MIRT548623 DAZAP1 DAZ associated protein 1 2 4
MIRT548770 COLEC12 collectin subfamily member 12 2 2
MIRT549506 HDDC2 HD domain containing 2 2 4
MIRT551924 AKAP8 A-kinase anchoring protein 8 2 4
MIRT555656 PGRMC1 progesterone receptor membrane component 1 2 2
MIRT556286 MAP3K5 mitogen-activated protein kinase kinase kinase 5 2 2
MIRT557012 HOXD13 homeobox D13 2 4
MIRT563907 CLSPN claspin 2 2
MIRT565527 SON SON DNA binding protein 2 2
MIRT568000 COMMD2 COMM domain containing 2 2 2
MIRT569831 PLA2G16 phospholipase A2 group XVI 2 4
MIRT573905 PARP1 poly(ADP-ribose) polymerase 1 2 2
MIRT616589 KLHL9 kelch like family member 9 2 2
MIRT617137 ZNF556 zinc finger protein 556 2 2
MIRT617400 API5 apoptosis inhibitor 5 2 2
MIRT617455 CCS copper chaperone for superoxide dismutase 2 2
MIRT617799 ZNF793 zinc finger protein 793 2 2
MIRT618190 MACC1 MACC1, MET transcriptional regulator 2 2
MIRT618303 GNE glucosamine (UDP-N-acetyl)-2-epimerase/N-acetylmannosamine kinase 2 2
MIRT618329 ZNF813 zinc finger protein 813 2 2
MIRT618820 PHF20 PHD finger protein 20 2 2
MIRT619153 PPDPF pancreatic progenitor cell differentiation and proliferation factor 2 2
MIRT619530 ZNF708 zinc finger protein 708 2 2
MIRT619849 KIR3DX1 killer cell immunoglobulin like receptor, three Ig domains X1 2 2
MIRT620806 SLC26A2 solute carrier family 26 member 2 2 2
MIRT621312 YIPF4 Yip1 domain family member 4 2 2
MIRT621358 GUCA1B guanylate cyclase activator 1B 2 2
MIRT621366 ART4 ADP-ribosyltransferase 4 (Dombrock blood group) 2 2
MIRT621547 ZMYM1 zinc finger MYM-type containing 1 2 2
MIRT621883 TAOK1 TAO kinase 1 2 2
MIRT622451 RNF19B ring finger protein 19B 2 2
MIRT623404 KREMEN1 kringle containing transmembrane protein 1 2 2
MIRT623587 IPO9 importin 9 2 2
MIRT623974 FAM63A MINDY lysine 48 deubiquitinase 1 2 2
MIRT624086 DPP8 dipeptidyl peptidase 8 2 2
MIRT624108 DNAH10OS dynein axonemal heavy chain 10 opposite strand 2 2
MIRT632486 RNF8 ring finger protein 8 2 2
MIRT634057 PLIN3 perilipin 3 2 2
MIRT634657 GDE1 glycerophosphodiester phosphodiesterase 1 2 2
MIRT640682 MCUR1 mitochondrial calcium uniporter regulator 1 2 2
MIRT641242 CENPN centromere protein N 2 2
MIRT642260 ZNF677 zinc finger protein 677 2 2
MIRT642954 RELA RELA proto-oncogene, NF-kB subunit 2 2
MIRT644326 IPP intracisternal A particle-promoted polypeptide 2 2
MIRT644632 ICA1L islet cell autoantigen 1 like 2 2
MIRT645721 POLR3A RNA polymerase III subunit A 2 2
MIRT647850 LYPLA1 lysophospholipase I 2 2
MIRT649281 NEK8 NIMA related kinase 8 2 2
MIRT650038 VHL von Hippel-Lindau tumor suppressor 2 2
MIRT650354 RRP36 ribosomal RNA processing 36 2 2
MIRT651144 ZNF384 zinc finger protein 384 2 2
MIRT651778 UTP6 UTP6, small subunit processome component 2 2
MIRT652576 TLCD2 TLC domain containing 2 2 2
MIRT654621 PTPRJ protein tyrosine phosphatase, receptor type J 2 2
MIRT656023 MYO5A myosin VA 2 2
MIRT656105 MSRB3 methionine sulfoxide reductase B3 2 2
MIRT657749 GMEB1 glucocorticoid modulatory element binding protein 1 2 2
MIRT657924 GATSL2 cytosolic arginine sensor for mTORC1 subunit 2 2 2
MIRT658848 DUSP19 dual specificity phosphatase 19 2 2
MIRT659100 DENND6A DENN domain containing 6A 2 2
MIRT659153 DCX doublecortin 2 2
MIRT660870 ADRBK2 G protein-coupled receptor kinase 3 2 2
MIRT661941 FAHD1 fumarylacetoacetate hydrolase domain containing 1 2 2
MIRT663577 C10orf32 BLOC-1 related complex subunit 7 2 2
MIRT664625 WDPCP WD repeat containing planar cell polarity effector 2 4
MIRT666562 RHOBTB3 Rho related BTB domain containing 3 2 2
MIRT669992 GPR156 G protein-coupled receptor 156 2 4
MIRT670445 RSBN1L round spermatid basic protein 1 like 2 2
MIRT670853 IFNAR1 interferon alpha and beta receptor subunit 1 2 4
MIRT671942 SPPL3 signal peptide peptidase like 3 2 2
MIRT674269 LMOD3 leiomodin 3 2 2
MIRT674424 MIOX myo-inositol oxygenase 2 4
MIRT674982 ATP5G1 ATP synthase, H+ transporting, mitochondrial Fo complex subunit C1 (subunit 9) 2 2
MIRT675038 BACE2 beta-site APP-cleaving enzyme 2 2 4
MIRT675309 C2orf68 chromosome 2 open reading frame 68 2 2
MIRT675641 TTPAL alpha tocopherol transfer protein like 2 2
MIRT688688 CPS1 carbamoyl-phosphate synthase 1 2 2
MIRT689369 ZNF101 zinc finger protein 101 2 2
MIRT689605 AKAP6 A-kinase anchoring protein 6 2 2
MIRT691715 LARS leucyl-tRNA synthetase 2 2
MIRT695473 TRAT1 T-cell receptor associated transmembrane adaptor 1 2 2
MIRT695530 MAP4K2 mitogen-activated protein kinase kinase kinase kinase 2 2 2
MIRT695878 CACNG8 calcium voltage-gated channel auxiliary subunit gamma 8 2 2
MIRT696586 ORMDL2 ORMDL sphingolipid biosynthesis regulator 2 2 2
MIRT703007 HEATR5A HEAT repeat containing 5A 2 2
MIRT707942 PHKA1 phosphorylase kinase regulatory subunit alpha 1 2 2
MIRT709765 GPR183 G protein-coupled receptor 183 2 2
MIRT710332 ZNF669 zinc finger protein 669 2 2
MIRT713249 ZFP30 ZFP30 zinc finger protein 2 2
MIRT716613 RBM18 RNA binding motif protein 18 2 2
MIRT733414 BAG2 BCL2 associated athanogene 2 2 0
MIRT756135 THSD7A thrombospondin type 1 domain containing 7A 3 1
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-1 Anthocyanin NULL 145858 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-1 Caffeic acid NULL 689043 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-1 Catechin approved 9064 Microarray apoE−/− mice 22253797 2012 up-regulated
miR-1 Curcumin NULL 969516 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-1 Ferulic acid NULL 445858 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-1 Hesperidin NULL 10621 Microarray apoE−/− mice 22253797 2012 up-regulated
miR-1 Quercetin NULL 5280343 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-1 Galactose NULL 6036 Quantitative real-time PCR lens 22736950 2012 up-regulated
miR-1 Hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) NULL 8490 Microarray mouse brain 19270793 2009 down-regulated
miR-1 Trichostatin A (TSA) NULL 444732 Quantitative real-time PCR myocardial differentiation of mouse ES cells 19521018 2009 down-regulated
miR-1 Sulfonyl-hydrazone-1 (SHZ) NULL NULL Quantitative real-time PCR Murine broblast-derived Induced pluripotent stem cells 21445862 2011 up-regulated
miR-1 Cocaine NULL 446220 Next-generation sequencing ventral striatum 21708909 2011 up-regulated
miR-1 Atorvastatin approved 60823 Quantitative real-time PCR Cardiomyocyte 23860036 2013 down-regualted
miR-1 Glucose NULL 5793 Quantitative real-time PCR endothelial cells 24394957 2014 down-regulated
miR-1 Docosahexaenoic acid NULL 445580 Quantitative real-time PCR Caco-2 cells 24623846 2014 up-regulated
miR-1 Palmitic acid approved 985 Quantitative real-time PCR Caco-2 cells 24623846 2014 up-regulated
miR-1 17beta-estradiol (E2) approved 5757 Microarray MCF-7AKT breast cancer cells 19528081 2009 down-regulated
miR-1 Essential amino acids (EAA) NULL NULL Quantitative real-time PCR skeletal muscle of young adults 19828686 2009 up-regulated
miR-1 Hydrogen peroxide (H2O2) NULL 784 Quantitative real-time PCR Human umbilical vein endothelial cells 21527937 2011 down-regulated
miR-1 Trichostatin A (TSA) NULL 444732 Microarray apoptosis-resistant breast cancer cells 21971930 2011 up-regulated
miR-1 Arsenic trioxide approved 14888 Quantitative real-time PCR acute promyelocytic leukemia 22072212 2012 up-regulated
miR-1 5-Fluorouracil approved 3385 Microarray CNE cells 22614822 2012 up-regulated
miR-1 Bicalutamide approved 2375 Microarray prostate 22674191 2012 up-regulated
miR-1 Arsenic trioxide approved 14888 Quantitative real-time PCR cardia 22889704 2012 up-regulated
miR-1 Perfluorooctane sulfonate NULL 74483 Microarray zebrafish embryos 20878907 2011 up-regulated
miR-1 Quinidine approved 441074 Quantitative real-time PCR myocardial infarction (MI) rats 19775284 2009 up-regulated
miR-1 Tanshinone IIA NULL 164676 Quantitative real-time PCR myocardial infarction (MI) rats 19775284 2009 down-regulated
miR-1 Tanshinone IIA NULL 164676 Quantitative real-time PCR post-infarction rat cardiomyocytes 21220930 2011 down-regulated
miR-1 Isoproterenol approved 3779 Quantitative real-time PCR heart 22847192 2012 down-regulated
miR-1 Dexamethasone approved 5743 Microarray adrenals and granulosa cells 24205079 2014 up-regulated
miR-1 Thiourea (TU) NULL 737139 Quantitative real-time PCR skeletal muscle and heart 22142802 2012 up-regulated
miR-1 Thiourea (TU) NULL 737139 Quantitative real-time PCR skeletal muscle and heart 22142802 2012 down-regulated
miR-1 Isoproterenol approved 3779 Quantitative real-time PCR heart 22847192 2012 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-1303 Oxaliplatin 6857599 NSC266046 approved sensitive High Colorectal Cancer cell line (RKO)
hsa-miR-1303 Oxaliplatin 6857599 NSC266046 approved resistant High Colorectal Cancer cell line (HT-29)
hsa-miR-1303 Imatinib 5291 NSC743414 approved sensitive High Gastrointestinal Stromal Tumor cell line (882R-NC, 882R-OE, 882R-KD)
hsa-miR-1303 Fulvestrant 17756771 NSC719276 approved sensitive High Breast Cancer cell line (MCF-7)
hsa-miR-1303 Rituximab sensitive High Diffuse Large B-Cell Lymphoma cell line (DB, NU-DHL-1, NU-DUL-1, MC-116, SU-DHL-4, SU-DHL-5, FARAGE, HBL-1, OCI-Ly3, OCI-Ly7, OCI-Ly8, OCI-Ly19, RIVA, SU-DHL-8, U2932)
hsa-miR-1303 Etoposide 36462 NSC141540 approved resistant High Colorectal Cancer cell line (HCT8)
hsa-miR-1303 Doxorubicin 31703 NSC123127 approved resistant High Colorectal Cancer cell line (HCT8)
hsa-miR-1303 Vinorelbine 44424639 approved resistant High Colorectal Cancer cell line (HCT8)
hsa-miR-1303 Vincristine 5978 approved resistant High Colorectal Cancer cell line (HCT8)
hsa-miR-1303 Paclitaxel 36314 NSC125973 approved resistant High Colorectal Cancer cell line (HCT8)
hsa-mir-1303 Dabrafenib 44462760 NSC764134 approved sensitive cell line (A375)
hsa-mir-1303 Cisplatin 5460033 NSC119875 approved resistant cell line (W1)
hsa-mir-1303 Topotecan 60699 NSC609699 approved resistant cell line (W1)
hsa-mir-1303 Androstenedione+Letrozole resistant cell line (MCF-7)
hsa-miR-1303 Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)
hsa-miR-1303 Osimertinib 71496458 NSC779217 approved sensitive cell line (HCC827)
hsa-miR-1303 Osimertinib 71496458 NSC779217 approved resistant cell line (PC9)
hsa-miR-1303 Vemurafenib 42611257 NSC761431 approved resistant cell line (451Lu)
hsa-miR-1303 Palbociclib 5330286 NSC758247 approved resistant tissue (breast cancer)
hsa-miR-1303 Cisplatin 5460033 NSC119875 approved sensitive cell line
hsa-miR-1303 Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)
hsa-miR-1303 Paclitaxel 36314 NSC125973 approved resistant cell line (BAS)
hsa-miR-1303 Doxorubicin 31703 NSC123127 approved resistant cell line (HS578T)
hsa-miR-1303 Cisplatin 5460033 NSC119875 approved resistant cell line (CP20)
hsa-miR-1303 Cisplatin 5460033 NSC119875 approved sensitive cell line (MGC-803)
hsa-miR-1303 Oxaliplatin 6857599 NSC266046 approved sensitive cell line (IGROV-1)
hsa-miR-1303 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)

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