miRTarBase - #MIRT572443


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pre-miRNA Information
pre-miRNA hsa-mir-938   
Genomic Coordinates chr10: 29602264 - 29602346
Synonyms MIRN938, hsa-mir-938, MIR938
Description Homo sapiens miR-938 stem-loop
Comment None
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-938
Sequence 15| UGCCCUUAAAGGUGAACCCAGU |36
Evidence Experimental
Experiments Cloned
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN28704008 2 COSMIC
COSN31533921 5 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs12416605 2 dbSNP
rs1348880424 3 dbSNP
rs1205636191 4 dbSNP
rs757919276 12 dbSNP
rs754296125 14 dbSNP
rs573596343 17 dbSNP
rs756660742 18 dbSNP
rs753092730 21 dbSNP
Putative Targets

Gene Information
Gene Symbol TRIM10   
Synonyms HERF1, RFB30, RNF9
Description tripartite motif containing 10
Transcript NM_006778   
Other Transcripts NM_052828   
Expression
Putative miRNA Targets on TRIM10
3'UTR of TRIM10
(miRNA target sites are highlighted)		 
>TRIM10|NM_006778|3'UTR
   1 GAAGGAGCAGTTACCTACTCTCCTCTAAGTACAGGACTCATATCAACCCAAGTACCATGTGGACTTGATCCCTGGCTGAA
  81 TCACCTGGATGACTTGGAATAGAAATGACTGCTTTAGAAGATGGGATGGGGCCGGGTGGTAAGGGATAGAAGAGAGGACT
 161 CTCAATCTACTGATCAAGTCCTTTCCCCAATGCCCAGTGGATGGCCAGGGTACCTGGGGACTCAGGCTGCTGCCAGTTCT
 241 GCTCACCACCATCCGTGCTTGGCACAGAAGTAGCTGCATAGAAAGGGCACTGGATTTGAAGTCAGAAGACCTGGGTTCTT
 321 GAACCAGCCTGTCAACCAGTTGTATGACTTTAAACAAGGCATCTCACCTCTTTTCATCTTGTTTTCTTCCAATAATGTTA
 401 GAGTTCATGTAATCACATTCTCTAGAACCATTTAGTTTGTGTTAACTATGAACCAAGCAGTGTGGTGGCCACTGGTGACT
 481 TGAAAATATAGAGAAAAAAAAAACCTGCTCTATATCTGAAAGAGCTCTTGGGAAGACAGAGAAACATAAAGAGGAAATTA
 561 CAGCACAGTGTGGTGGGTGTTACGGGAAGTCCAACCCCAGCATTATGGGAGTTCAGGGGAAGGGGCATAGCCCAGCCTGG
 641 AAGGAGAGGGTGAGTGGGGGATGGCTTTCTGAAAAGGGTGGTCTAAAGGATGCCTATGGTCAATAGGGAAAAGAGGGGAA
 721 GAAGCATCTTAAGAAGAGGAAACAGCAGAGAACTGGCTGGATGACCTGTGACTCTGGAGCACTGGGTTGTCTCCATTGTC
 801 ATTATGGGCAGATGTGTGCCATCCCCAGCCGACGCCACTCACTGCCTCCTTCCTCCTGGTGTTGCCACTTCTGGGTGAGA
 881 TTAAGGTGCAGGGCCTGGGGGCAGGAGGACATAAGGTATAGCCATAAATCATAACCCAGGGACCACACTCAACCCTAGGG
 961 AAATTGTCTTCCTGATCAGTTGATTACCATCTGAGGTCAAGAAATGAGATAGTGGGAGCAAATGGGTCACAAATAGCTCA
1041 GCTGTGGGCTCAGAAACTGCTAGGTAAAAGAATTCCAGAAGGAGGCCAGGGCATAAGTTGGATGACCTATGAACTTTAGT
1121 CTAAAGAATTGAGACTACCGTAATTGAGACTACTGTAGTGACATCTGAGAAATGGGATGGAAGAGTGACCATGTTTTATT
1201 TTCTTGTTCTTGTCACTATTGTATTTTATTTTGCATAATCATGCCCTTCACTGACAGTCTCCTTAACATCATCTGTTTAC
1281 TCTGCTCAGTGTAAACTACAATGCTCTGTCATCTCCCTACTGGGTCTCCTGGGAGGAGGGGAGCCATCCAGGGTGCAAAC
1361 TCAAAGGCAGAGGGCACAGCGTGCTTAGGCCCAAGCTTAGAATTCAATTGAGAAGTTCTGTTGTTCATCCTTACCTCAGC
1441 AGGTAGAAAAGAGGTGGAGATCAGAAGCCAGGGATTAGAGATTGAATTGCTTTCCCTGGGAGTGTGCAGTATCTCATTAA
1521 AATGTTGTATATTCAAAAAAATACAGACACACACAAGTGCCTATATAATGATAAAACATATCCAAAGCACCCAAACCTGT
1601 GATTCCAGAAAAGTAGATCCTATTTTTGTTTATTTTTATTGGCTTTAGCTGTGTCTTTTGAAAGGACTATTATCCTCTAA
1681 AATGTATGTGTATGAAGATCCTGGCTTGCAGCTCGGGAGCTTTACACACCTTGTGTCACTTTATCTTGGTAACGAGCCAA
1761 GATCATGCAACCAGTTCATCCATGTCTGACCCAAGAGCTCTTAACTGCTATGCTGCACTGCCTCATTCAGAGATAGATGC
1841 CTGCATGGGTCCTGGCGATTATTTTAATGCTGGCTACACCCCCACAGGTGACTTGGATTCAGAAATACAATTTATATTTC
1921 TTCTTTTTAAATTGTTTTATTTTATTTTTCTTTTAATAGTTATATGTCAGTGAGAACAATTTATATGTCTTACACTGAGA
2001 AATAAAACTGCTCATAAGTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
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' ugACCCAAGUGGA-AAUUCCCgu 5'
            ||||  |:  |  ||||||  
Target 5' gaTGGGGCCGGGTGGTAAGGGat 3'
 125 - 147 128.00 -15.10
2 
miRNA  3' ugACCCAA-----GU---GGAAAUUCCCGu 5'
            ||||||     ||   :| ||| |||| 
Target 5' acTGGGTTGTCTCCATTGTCATTATGGGCa 3'
 781 - 810 128.00 -19.50
3 
miRNA  3' ugacccaaguggaaaUUCCCGu 5'
                         |||||| 
Target 5' aagtagctgcatagaAAGGGCa 3'
 268 - 289 120.00 -12.50
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30189652 22 COSMIC
COSN30523501 32 COSMIC
COSN30517459 39 COSMIC
COSN31540899 39 COSMIC
COSN31494747 75 COSMIC
COSN30481715 78 COSMIC
COSN30109647 88 COSMIC
COSN28800677 135 COSMIC
COSN8871513 141 COSMIC
COSN31494194 148 COSMIC
COSN30104200 152 COSMIC
COSN30513082 154 COSMIC
COSN30449237 185 COSMIC
COSM8703165 196 COSMIC
COSM2152082 217 COSMIC
COSM8780314 224 COSMIC
COSM8669819 225 COSMIC
COSM4393584 230 COSMIC
COSM7865043 254 COSMIC
COSM8861556 279 COSMIC
COSN28699603 286 COSMIC
COSN31481287 290 COSMIC
COSN30104290 296 COSMIC
COSN31594181 310 COSMIC
COSN31606551 406 COSMIC
COSN30587871 417 COSMIC
COSN30163789 453 COSMIC
COSN21357198 624 COSMIC
COSN2159147 1093 COSMIC
COSN21017767 1100 COSMIC
COSN8400446 1150 COSMIC
COSN20102558 1289 COSMIC
COSN21322941 1360 COSMIC
COSN20102555 1626 COSMIC
COSN20676511 1743 COSMIC
rs2022065 286 GWAS
rs9468693 1109 GWAS
rs9468692 1856 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs751090184 7 dbSNP
rs762837556 8 dbSNP
rs1370791944 11 dbSNP
rs1383596753 12 dbSNP
rs1183267864 16 dbSNP
rs775528194 19 dbSNP
rs765145533 22 dbSNP
rs1197351730 23 dbSNP
rs569324042 26 dbSNP
rs1250712521 30 dbSNP
rs1386762943 32 dbSNP
rs1222555522 40 dbSNP
rs773569580 41 dbSNP
rs1185506963 48 dbSNP
rs898901220 52 dbSNP
rs1162176601 55 dbSNP
rs892913107 58 dbSNP
rs1422798803 59 dbSNP
rs1413860881 71 dbSNP
rs759243543 75 dbSNP
rs1183570489 82 dbSNP
rs1244228910 84 dbSNP
rs1005697808 89 dbSNP
rs1486974242 96 dbSNP
rs1205445290 98 dbSNP
rs1054201246 102 dbSNP
rs934375412 112 dbSNP
rs559075573 120 dbSNP
rs902853818 125 dbSNP
rs2517649 132 dbSNP
rs376605686 133 dbSNP
rs1365119002 134 dbSNP
rs55670497 135 dbSNP
rs570523320 136 dbSNP
rs3734840 141 dbSNP
rs768564482 144 dbSNP
rs1312456828 146 dbSNP
rs772485615 152 dbSNP
rs748386559 156 dbSNP
rs774336839 157 dbSNP
rs768744838 158 dbSNP
rs147954414 159 dbSNP
rs780485179 160 dbSNP
rs770148993 162 dbSNP
rs561684446 163 dbSNP
rs1163161893 172 dbSNP
rs1440492890 175 dbSNP
rs781525167 177 dbSNP
rs756907085 178 dbSNP
rs1481667887 180 dbSNP
rs920713194 187 dbSNP
rs751191960 188 dbSNP
rs765208131 189 dbSNP
rs374872920 190 dbSNP
rs757876056 191 dbSNP
rs1249626433 199 dbSNP
rs1179555594 202 dbSNP
rs750731963 208 dbSNP
rs1288884523 209 dbSNP
rs752691257 213 dbSNP
rs1350887065 215 dbSNP
rs12210298 221 dbSNP
rs759538414 223 dbSNP
rs1335591127 225 dbSNP
rs987461314 226 dbSNP
rs753742225 229 dbSNP
rs766169289 233 dbSNP
rs553187271 242 dbSNP
rs915753690 251 dbSNP
rs992700998 252 dbSNP
rs761975346 254 dbSNP
rs774588443 255 dbSNP
rs768636858 267 dbSNP
rs148969734 270 dbSNP
rs878973550 274 dbSNP
rs775545025 280 dbSNP
rs9468694 281 dbSNP
rs1029227867 282 dbSNP
rs1199893736 285 dbSNP
rs2022065 286 dbSNP
rs1266720370 287 dbSNP
rs376618536 291 dbSNP
rs1447129770 292 dbSNP
rs1263373021 297 dbSNP
rs771284773 298 dbSNP
rs546198554 299 dbSNP
rs373314409 310 dbSNP
rs1375047826 312 dbSNP
rs777425754 314 dbSNP
rs1236139645 315 dbSNP
rs577316825 323 dbSNP
rs1280807319 324 dbSNP
rs1283231626 331 dbSNP
rs1411157628 334 dbSNP
rs1182809521 344 dbSNP
rs1207892025 356 dbSNP
rs768087823 360 dbSNP
rs186211413 361 dbSNP
rs999031202 370 dbSNP
rs540329494 378 dbSNP
rs560166952 386 dbSNP
rs998331337 387 dbSNP
rs901417990 388 dbSNP
rs1195836276 389 dbSNP
rs1426353170 400 dbSNP
rs771972109 401 dbSNP
rs144871957 403 dbSNP
rs949730964 406 dbSNP
rs1328491859 408 dbSNP
rs1356853766 409 dbSNP
rs1466208281 416 dbSNP
rs778530325 429 dbSNP
rs1374878939 433 dbSNP
rs1443416173 434 dbSNP
rs1275703715 436 dbSNP
rs544535036 446 dbSNP
rs575508883 449 dbSNP
rs904524533 453 dbSNP
rs1055630646 456 dbSNP
rs1297632464 469 dbSNP
rs1318520188 474 dbSNP
rs1230760445 487 dbSNP
rs9261533 488 dbSNP
rs1301055186 489 dbSNP
rs1255630732 490 dbSNP
rs1387658584 491 dbSNP
rs1367884554 493 dbSNP
rs539037834 494 dbSNP
rs1036174438 498 dbSNP
rs916021858 499 dbSNP
rs11760001 503 dbSNP
rs377289058 504 dbSNP
rs911967519 504 dbSNP
rs938509278 504 dbSNP
rs987900651 504 dbSNP
rs553833476 507 dbSNP
rs2517651 511 dbSNP
rs1398159398 512 dbSNP
rs1458718008 514 dbSNP
rs922212241 516 dbSNP
rs989737232 518 dbSNP
rs958235504 528 dbSNP
rs1175115673 531 dbSNP
rs2517652 545 dbSNP
rs1031601923 551 dbSNP
rs1340997580 557 dbSNP
rs2517653 561 dbSNP
rs1257439768 577 dbSNP
rs1269742214 580 dbSNP
rs1186903788 583 dbSNP
rs755322736 584 dbSNP
rs1288698953 585 dbSNP
rs1024058953 586 dbSNP
rs2517654 590 dbSNP
rs1219757112 592 dbSNP
rs1248691571 595 dbSNP
rs764568794 601 dbSNP
rs1244221479 612 dbSNP
rs1488843011 619 dbSNP
rs371284219 623 dbSNP
rs1193543076 624 dbSNP
rs1422175635 628 dbSNP
rs568262672 638 dbSNP
rs1210627731 648 dbSNP
rs2508030 650 dbSNP
rs894153530 661 dbSNP
rs1403836335 669 dbSNP
rs908863683 677 dbSNP
rs1255863320 679 dbSNP
rs2508031 680 dbSNP
rs1360895326 682 dbSNP
rs1314308414 683 dbSNP
rs1305254636 686 dbSNP
rs758944521 696 dbSNP
rs2517655 698 dbSNP
rs899057393 708 dbSNP
rs1448043729 719 dbSNP
rs1283107054 722 dbSNP
rs1353767755 726 dbSNP
rs2517656 751 dbSNP
rs2517657 752 dbSNP
rs1225152654 754 dbSNP
rs1320677042 768 dbSNP
rs2517658 776 dbSNP
rs1286342252 778 dbSNP
rs1030065748 780 dbSNP
rs998277512 787 dbSNP
rs965534558 790 dbSNP
rs1399993618 796 dbSNP
rs1261572621 798 dbSNP
rs1444646488 800 dbSNP
rs9261532 801 dbSNP
rs762240064 809 dbSNP
rs1051847010 811 dbSNP
rs999520545 829 dbSNP
rs932018465 830 dbSNP
rs532549003 831 dbSNP
rs560243712 833 dbSNP
rs2285795 834 dbSNP
rs894535604 847 dbSNP
rs1414997424 848 dbSNP
rs1390968536 854 dbSNP
rs1190610897 859 dbSNP
rs924201225 864 dbSNP
rs1057256748 865 dbSNP
rs1309524059 868 dbSNP
rs970913149 875 dbSNP
rs938458612 876 dbSNP
rs1025530993 886 dbSNP
rs1201518285 888 dbSNP
rs760365520 901 dbSNP
rs1013961959 902 dbSNP
rs17188071 905 dbSNP
rs1278600141 907 dbSNP
rs958426026 913 dbSNP
rs1180663675 915 dbSNP
rs1036235149 916 dbSNP
rs767042723 919 dbSNP
rs1439334471 924 dbSNP
rs909153136 936 dbSNP
rs1341045823 945 dbSNP
rs985744797 950 dbSNP
rs994448457 966 dbSNP
rs1396698523 973 dbSNP
rs1478258807 975 dbSNP
rs1171910070 977 dbSNP
rs759339057 980 dbSNP
rs1411087504 989 dbSNP
rs1036279272 990 dbSNP
rs1399030619 996 dbSNP
rs530119675 999 dbSNP
rs1338186753 1001 dbSNP
rs1305229723 1016 dbSNP
rs774362244 1018 dbSNP
rs41272579 1019 dbSNP
rs975806595 1023 dbSNP
rs965538741 1024 dbSNP
rs890301084 1040 dbSNP
rs1343500645 1041 dbSNP
rs1200547281 1044 dbSNP
rs1051992179 1051 dbSNP
rs181128192 1057 dbSNP
rs1196955082 1061 dbSNP
rs1404215884 1067 dbSNP
rs761508163 1081 dbSNP
rs1433547086 1084 dbSNP
rs1305980596 1086 dbSNP
rs900576355 1087 dbSNP
rs544396671 1091 dbSNP
rs1323509927 1093 dbSNP
rs774071393 1097 dbSNP
rs749109108 1102 dbSNP
rs9468693 1109 dbSNP
rs2857433 1113 dbSNP
rs1471886262 1116 dbSNP
rs1012899330 1126 dbSNP
rs1367947138 1128 dbSNP
rs894483515 1130 dbSNP
rs1035745808 1133 dbSNP
rs545329792 1139 dbSNP
rs949630562 1140 dbSNP
rs1387640653 1144 dbSNP
rs17194411 1149 dbSNP
rs1329808932 1155 dbSNP
rs990921384 1158 dbSNP
rs143308364 1172 dbSNP
rs1204906118 1173 dbSNP
rs1317355827 1180 dbSNP
rs2257914 1183 dbSNP
rs746292467 1185 dbSNP
rs1208966574 1186 dbSNP
rs151067256 1192 dbSNP
rs1353704589 1203 dbSNP
rs1489171252 1205 dbSNP
rs1194269666 1207 dbSNP
rs1014970560 1209 dbSNP
rs1283055031 1216 dbSNP
rs1244820055 1218 dbSNP
rs1166300252 1219 dbSNP
rs1368628292 1227 dbSNP
rs1050320770 1228 dbSNP
rs1004804013 1233 dbSNP
rs1163001093 1238 dbSNP
rs1364073943 1239 dbSNP
rs931607698 1242 dbSNP
rs1334963188 1244 dbSNP
rs1409060091 1246 dbSNP
rs1299335973 1251 dbSNP
rs757761152 1257 dbSNP
rs995993494 1261 dbSNP
rs900628549 1270 dbSNP
rs754204913 1271 dbSNP
rs1244293160 1280 dbSNP
rs922946786 1284 dbSNP
rs1053863570 1285 dbSNP
rs1355567317 1287 dbSNP
rs3214172 1290 dbSNP
rs1487276036 1292 dbSNP
rs2285796 1296 dbSNP
rs1256287095 1297 dbSNP
rs71555000 1297 dbSNP
rs1422773602 1304 dbSNP
rs935073300 1312 dbSNP
rs923737410 1313 dbSNP
rs1184936568 1315 dbSNP
rs1410404033 1320 dbSNP
rs1421830938 1326 dbSNP
rs1360389678 1330 dbSNP
rs1452294848 1339 dbSNP
rs2517659 1344 dbSNP
rs1182081601 1356 dbSNP
rs1305150866 1359 dbSNP
rs1473155494 1361 dbSNP
rs1254388697 1365 dbSNP
rs3132126 1371 dbSNP
rs755721812 1373 dbSNP
rs977964428 1379 dbSNP
rs3132125 1380 dbSNP
rs1310841633 1381 dbSNP
rs1379401922 1385 dbSNP
rs1449539314 1391 dbSNP
rs1288633200 1392 dbSNP
rs1351368067 1398 dbSNP
rs752365836 1407 dbSNP
rs1482638443 1421 dbSNP
rs1198232468 1436 dbSNP
rs766958982 1439 dbSNP
rs538032689 1449 dbSNP
rs1239552434 1451 dbSNP
rs1439941670 1454 dbSNP
rs991750519 1456 dbSNP
rs918148750 1472 dbSNP
rs1417753316 1473 dbSNP
rs9261531 1478 dbSNP
rs1360316311 1485 dbSNP
rs1035692370 1491 dbSNP
rs1465550608 1496 dbSNP
rs1334808310 1497 dbSNP
rs1227689217 1498 dbSNP
rs938177578 1505 dbSNP
rs773803431 1509 dbSNP
rs1447838846 1513 dbSNP
rs1281104568 1514 dbSNP
rs897889870 1528 dbSNP
rs1370885145 1542 dbSNP
rs1220797929 1547 dbSNP
rs1301895505 1549 dbSNP
rs927076796 1553 dbSNP
rs552504552 1556 dbSNP
rs1015020881 1568 dbSNP
rs1457852760 1569 dbSNP
rs1197595930 1575 dbSNP
rs9261530 1582 dbSNP
rs1479860020 1591 dbSNP
rs887619434 1599 dbSNP
rs1426418574 1601 dbSNP
rs1433139171 1602 dbSNP
rs188446232 1606 dbSNP
rs1443280721 1608 dbSNP
rs1425833618 1609 dbSNP
rs9261529 1612 dbSNP
rs954674464 1617 dbSNP
rs1030251111 1619 dbSNP
rs1438270509 1620 dbSNP
rs3216932 1624 dbSNP
rs2285797 1626 dbSNP
rs201590972 1627 dbSNP
rs373400611 1627 dbSNP
rs139813383 1628 dbSNP
rs1366767396 1629 dbSNP
rs1003228811 1630 dbSNP
rs1410748196 1632 dbSNP
rs1280069609 1634 dbSNP
rs1317983776 1640 dbSNP
rs1217553439 1647 dbSNP
rs1171203612 1650 dbSNP
rs530257581 1651 dbSNP
rs747180309 1652 dbSNP
rs534080860 1672 dbSNP
rs935027046 1675 dbSNP
rs923663056 1682 dbSNP
rs1247695369 1685 dbSNP
rs1199117966 1705 dbSNP
rs1197830637 1708 dbSNP
rs371053178 1711 dbSNP
rs775857593 1713 dbSNP
rs947508396 1715 dbSNP
rs1207513069 1718 dbSNP
rs1417615013 1719 dbSNP
rs1407337619 1728 dbSNP
rs1329802994 1729 dbSNP
rs772248605 1734 dbSNP
rs377747837 1743 dbSNP
rs1217264639 1750 dbSNP
rs991696805 1753 dbSNP
rs958928664 1754 dbSNP
rs1341129269 1757 dbSNP
rs1398835284 1777 dbSNP
rs868652252 1780 dbSNP
rs1042420975 1781 dbSNP
rs1035976632 1794 dbSNP
rs1363166858 1795 dbSNP
rs1357989052 1797 dbSNP
rs981818802 1804 dbSNP
rs765746475 1805 dbSNP
rs550618472 1818 dbSNP
rs41272575 1821 dbSNP
rs1359094418 1825 dbSNP
rs1006311537 1832 dbSNP
rs1220721325 1845 dbSNP
rs1288772772 1851 dbSNP
rs1488934126 1852 dbSNP
rs952164325 1853 dbSNP
rs9468692 1856 dbSNP
rs995989117 1857 dbSNP
rs1182609274 1859 dbSNP
rs901754943 1863 dbSNP
rs1332768048 1872 dbSNP
rs1040287160 1878 dbSNP
rs756481049 1879 dbSNP
rs902185994 1883 dbSNP
rs1160297288 1888 dbSNP
rs938231942 1892 dbSNP
rs1419065696 1895 dbSNP
rs752283833 1907 dbSNP
rs573443119 1910 dbSNP
rs1448137057 1922 dbSNP
rs761385319 1923 dbSNP
rs941801651 1931 dbSNP
rs946485482 1935 dbSNP
rs1311976478 1941 dbSNP
rs1354912457 1943 dbSNP
rs10733 1950 dbSNP
rs1205011997 1952 dbSNP
rs916360351 1970 dbSNP
rs1282789804 1971 dbSNP
rs1173925767 1989 dbSNP
rs1055961654 1996 dbSNP
rs983178659 1999 dbSNP
rs1242747602 2001 dbSNP
rs937504072 2005 dbSNP
rs1387888004 2009 dbSNP
rs1443062355 2011 dbSNP
rs185542680 2013 dbSNP
rs551696211 2014 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
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 GSM545213. RNA binding protein: AGO2. Condition:Control ...

- Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' ugacccaaguggAAAUUCCCGu 5'
                      |||:| | | 
Target 5' ------acuggaUUUGAAGUCa 3'
 		1 - 16
Article - Hafner M; Landthaler M; Burger L; Khorshid et al.
- Cell, 2010
RNA transcripts are subject to posttranscriptional gene regulation involving hundreds of RNA-binding proteins (RBPs) and microRNA-containing ribonucleoprotein complexes (miRNPs) expressed in a cell-type dependent fashion. We developed a cell-based crosslinking approach to determine at high resolution and transcriptome-wide the binding sites of cellular RBPs and miRNPs. The crosslinked sites are revealed by thymidine to cytidine transitions in the cDNAs prepared from immunopurified RNPs of 4-thiouridine-treated cells. We determined the binding sites and regulatory consequences for several intensely studied RBPs and miRNPs, including PUM2, QKI, IGF2BP1-3, AGO/EIF2C1-4 and TNRC6A-C. Our study revealed that these factors bind thousands of sites containing defined sequence motifs and have distinct preferences for exonic versus intronic or coding versus untranslated transcript regions. The precise mapping of binding sites across the transcriptome will be critical to the interpretation of the rapidly emerging data on genetic variation between individuals and how these variations contribute to complex genetic diseases.
LinkOut: [PMID: 20371350]
CLIP-seq Support 1 for dataset GSM545213
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / Control
Location of target site ENST00000449742.2 | 3UTR | ACUGGAUUUGAAGUCAGAAGA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
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 -0.651 8.0e-3 -0.709 3.3e-3 13 Click to see details
GSE17498 Multiple myeloma -0.252 5.8e-2 -0.193 1.2e-1 40 Click to see details
GSE28544 Breast cancer -0.275 9.7e-2 -0.256 1.1e-1 24 Click to see details
GSE21687 Ependynoma primary tumors -0.163 9.9e-2 -0.129 1.5e-1 64 Click to see details
GSE32688 Pancreatic cancer -0.152 2.0e-1 0.088 3.2e-1 32 Click to see details
GSE19350 CNS germ cell tumors 0.262 2.1e-1 0.281 1.9e-1 12 Click to see details
GSE42095 Differentiated embryonic stem cells -0.133 2.7e-1 0.018 4.7e-1 23 Click to see details
GSE34608 Pulmonary tuberculosis and sarcoidosis -0.127 3.0e-1 -0.090 3.5e-1 20 Click to see details
GSE26953 Aortic valvular endothelial cells 0.063 3.8e-1 0.137 2.6e-1 24 Click to see details
GSE38226 Liver fibrosis 0.06 4.0e-1 0.070 3.8e-1 21 Click to see details
GSE38974 Chronic obstructive pulmonary disease 0.021 4.6e-1 0.127 2.7e-1 25 Click to see details
GSE38974 Chronic obstructive pulmonary disease 0.021 4.6e-1 0.127 2.7e-1 25 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
0.021 4.6e-1 0.127 2.7e-1 25 Click to see details
0.021 4.6e-1 0.127 2.7e-1 25 Click to see details
0.021 4.6e-1 0.127 2.7e-1 25 Click to see details
0.021 4.6e-1 0.127 2.7e-1 25 Click to see details
0.021 4.6e-1 0.127 2.7e-1 25 Click to see details
54 hsa-miR-938 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT073757 NUBP1 nucleotide binding protein 1 2 2
MIRT092006 SNRK SNF related kinase 2 12
MIRT218174 MRPL18 mitochondrial ribosomal protein L18 2 2
MIRT485452 IVNS1ABP influenza virus NS1A binding protein 2 2
MIRT489857 ATP2A3 ATPase sarcoplasmic/endoplasmic reticulum Ca2+ transporting 3 2 2
MIRT495407 SPPL3 signal peptide peptidase like 3 2 4
MIRT495762 ZNF607 zinc finger protein 607 2 2
MIRT497391 RALY RALY heterogeneous nuclear ribonucleoprotein 2 2
MIRT499227 VAV3 vav guanine nucleotide exchange factor 3 2 4
MIRT507059 H3F3B H3 histone family member 3B 2 2
MIRT513671 SOCS5 suppressor of cytokine signaling 5 2 8
MIRT526922 IRGQ immunity related GTPase Q 2 4
MIRT527488 OCIAD1 OCIA domain containing 1 2 2
MIRT527566 ADCY7 adenylate cyclase 7 2 2
MIRT528081 NOL9 nucleolar protein 9 2 2
MIRT528535 CYP2C19 cytochrome P450 family 2 subfamily C member 19 2 4
MIRT533896 TBL1XR1 transducin beta like 1 X-linked receptor 1 2 2
MIRT536523 KCTD10 potassium channel tetramerization domain containing 10 2 2
MIRT541382 CDKN1A cyclin dependent kinase inhibitor 1A 2 2
MIRT550254 FAM120AOS family with sequence similarity 120A opposite strand 2 2
MIRT555975 NPTN neuroplastin 2 2
MIRT557394 H3F3C H3 histone family member 3C 2 2
MIRT568594 ADM adrenomedullin 2 2
MIRT571876 NCL nucleolin 2 2
MIRT572443 TRIM10 tripartite motif containing 10 2 2
MIRT610589 PRDM1 PR/SET domain 1 2 2
MIRT614044 THBS2 thrombospondin 2 2 2
MIRT618412 ATP2A2 ATPase sarcoplasmic/endoplasmic reticulum Ca2+ transporting 2 2 2
MIRT623398 LHFPL2 LHFPL tetraspan subfamily member 2 2 2
MIRT623948 FBXO47 F-box protein 47 2 2
MIRT625349 MGLL monoglyceride lipase 2 2
MIRT635447 FAM180B family with sequence similarity 180 member B 2 2
MIRT638249 SLC16A9 solute carrier family 16 member 9 2 2
MIRT642662 RGS6 regulator of G protein signaling 6 2 2
MIRT646431 ARAP1 ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1 2 2
MIRT647172 ARGFX arginine-fifty homeobox 2 2
MIRT654891 POU2F1 POU class 2 homeobox 1 2 2
MIRT659337 CSE1L chromosome segregation 1 like 2 2
MIRT667407 MGAT5 mannosyl (alpha-1,6-)-glycoprotein beta-1,6-N-acetyl-glucosaminyltransferase 2 2
MIRT698892 SPTBN2 spectrin beta, non-erythrocytic 2 2 2
MIRT703841 ETV3 ETS variant 3 2 2
MIRT708322 NT5C 5', 3'-nucleotidase, cytosolic 2 2
MIRT708934 CRY2 cryptochrome circadian clock 2 2 2
MIRT709745 UBD ubiquitin D 2 2
MIRT710265 FAM107A family with sequence similarity 107 member A 2 2
MIRT712576 ATP2B4 ATPase plasma membrane Ca2+ transporting 4 2 2
MIRT712645 TXNL4A thioredoxin like 4A 2 2
MIRT714833 SCAMP2 secretory carrier membrane protein 2 2 2
MIRT720673 SLC39A13 solute carrier family 39 member 13 2 2
MIRT723041 MAPT microtubule associated protein tau 2 2
MIRT723669 CTC1 CST telomere replication complex component 1 2 2
MIRT723772 ROBO4 roundabout guidance receptor 4 2 2
MIRT723812 OR1L8 olfactory receptor family 1 subfamily L member 8 2 2
MIRT736795 RBM5 RNA binding motif protein 5 2 0
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-938 Emodin NULL 3220 Microarray K562 cells 23744534 2013 down-regualted
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-938 Paclitaxel 36314 NSC125973 approved sensitive High Non-Small Cell Lung Cancer cell line (H358, H1155)
hsa-miR-938 Vemurafenib 42611257 NSC761431 approved resistant cell line (LM16)
hsa-miR-938 Vemurafenib 42611257 NSC761431 approved resistant cell line (LM43)
hsa-miR-938 4-Hydroxytamoxifen+Tamoxifen sensitive cell line (LY2)
hsa-miR-938 Ethanol+Tamoxifen sensitive cell line (LY2)
hsa-miR-938 Sunitinib 5329102 NSC750690 approved resistant tissue (CardB)
hsa-miR-938 Oxaliplatin 6857599 NSC266046 approved sensitive cell line (IGROV-1)
hsa-miR-938 Cisplatin 5460033 NSC119875 approved sensitive cell line (IGROV-1)
hsa-miR-938 Paclitaxel 36314 NSC125973 approved sensitive cell line (PC3PR70)
hsa-miR-938 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-938 Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)
hsa-miR-938 Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)

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