miRTarBase - #MIRT035977


—
pre-miRNA Information
pre-miRNA hsa-mir-1301   
Genomic Coordinates chr2: 25328640 - 25328721
Synonyms MIRN1301, hsa-mir-1301, MIR1301
Description Homo sapiens miR-1301 stem-loop
Comment None
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-1301-3p
Sequence 48| UUGCAGCUGCCUGGGAGUGACUUC |71
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 5 2 - 25328670 26449202, 27298257, 28411194, 28550310, 28855684, 29267965, 29950133, 29165639, 29233923 MiREDiBase
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs775188648 6 dbSNP
rs1022364375 11 dbSNP
rs938368115 12 dbSNP
rs771728471 15 dbSNP
rs778709428 19 dbSNP
rs1358947891 20 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol SKP1   
Synonyms EMC19, OCP-II, OCP2, SKP1A, TCEB1L, p19A
Description S-phase kinase associated protein 1
Transcript NM_006930   
Other Transcripts NM_170679   
Expression
Putative miRNA Targets on SKP1
3'UTR of SKP1
(miRNA target sites are highlighted)		 
>SKP1|NM_006930|3'UTR
   1 TCACATGCTCTTAAAAAGGGAGTAACACCTATAACATGCCAGCAAAAGAGGTGACTGTATCAAGTAGTCTTGATACTTTA
  81 GGGATAATATGTACTTAATGTGTCTTAAACATACTCTTACTGTTCTGTCTTTATGAATCTGAACACTTAGATGATACTGC
 161 ATTTTAAGCATAAGAACAATTAGTTTTCAATGAGAAGAGCTCTTGTTAATGTATTAACAGTTACTAGTTTTGGCACCTGC
 241 AACTTTCTGTATAGACCATACATATCTGACATCAGAAAAGCAGGCCCTAGAGAGAAGTATATACTAGGGTACTTTAGAGC
 321 AACTTAATGAGGGGAGGAAATGAAAGAATAGATCAGAATGATTTTGTTGACATGACTACAGACTGAAATAATGTGAATGA
 401 ATTAACTGAATTTGCTCTGTCAACTTTAGTAAATTGCCCATTGCCTTTGCTTTGTTCATAATTTCAGCAGGGCAGAATAA
 481 AAACCATGGGAGGCAAAGAAAGGAAATCCGGAAATATAGTCTTAACCTGGTGTTGTTCTAATTTTCCATCTGTTCTTCTG
 561 ACTCAACTCACTGGCTATCGATGAATCAGTAGGTAGTATTTATAAGTCTTAGGAAAGACTACTCAAGTTAAGGTACTTCC
 641 CTATATCCATCTCTTTTAGGTACGCAAAGAGAACCAGTGGTGTGAAGAGAAGTGAAATGTTGTGCCTGACACTGTAACAC
 721 TGTAAGGATTGTTCCAAATACTAGTTGCACTGCTCTGTTTATAATTGTTAATATTAGACAAACAGTAGACAAATGCAGCA
 801 GCAAGTCAATTGTATTAGCAGAATATTGTCCTCATTGCATGTGTAGTTTGAGCACAGATCCCAAACCTTACGGCCAAGTT
 881 TCTTCTAGTATGATGGAAAGTTTCTTTTTTCTTTGCTCTGAATAAAACTGAACTGTGGGTTCTCTATAAGTGGCATTTTG
 961 GGCTTTCCCTCTTTTTTGTAAAGCAATGTCTGCCTAGTTTATTGTCCAGTTAACTTTAGTGACCTTTTAAAAGTTGGCAT
1041 TGTAAATAAAACAACTTGCAAAAAAGTTTTCTGGAATAGAATTAACAAAATATTATCTTTATTCATGAGTTGGAAACTGG
1121 AAAAAGGCTTCTTGAAGTAAATGTTCTGAGTGGAGCTACTAGGATGTCTTCCAGCCTCCTGCAGTCAAGGAGTACCACTG
1201 TATTGATTAGCCTGTATGTAGCAGGGCTCCCTTCATTGCATCTGAGGACTTGTTTTCTTTTTCTTTATTTTTAATCCTCT
1281 TAGTTTTAAATATATTGCCTAGAGACTCAGTTACTACCCAGTTTGTGGTTTTTTGGGAGAAATGTAACTGGACAGTTAGC
1361 TTTTCAATTAAAAAGACACTTAACCCATGTGGGATGTCATCTTTTTATAATTAGTGTTCCCATGTGGAGAAAATTATTCA
1441 CACTACTTGCATGTAAAGAATAATTTAACTTTTAACATTAAAATATGTGGTAAAACCCAGAAAGCATCCATCATGAATGC
1521 AAGATACTTTCAATAAAAAGTAAGTTATATAGTAGGTAGTTAAGTTTGCTTTTGTGGACTTAAATGTGTCTCTTCACTTA
1601 AATGGGTTGAATGTGTATATATTTGTTCAGCTTGAAAAGACTTAGTTTATATCCTAGCTCACTGGAGGCTGCTGACATAA
1681 CCATAACTTCTGTCCCTTCTAATTGTCATTTATATGCCTAACTGGAGCTAGTACTTTAATTCTTAACACAAAATTACTCT
1761 GCCATTGTTTCCAGCTTCCCTCCTACAATAGAATGAAGTTTTTTTGATGGCTTGAGATGGCTCACAAATTTTGATTTTTT
1841 TTTCTTCCTTGTGCTCCCTTTTTTTCTCCTTGCTTTTCCAGTTAACATCTATATTCACATGTAATCTTGTTTTCTCTTCA
1921 CATTCACTGAGTTGTTCAGGCTCAGATCATCCCTTGACAGTAGTTTGCCTTCATCTCACCTTTCATTTGTCCCAAATTCA
2001 CCTTATTTAATAAAGTCCCATATGTTGTCTCACTTAAAAAAAAAAAAAAAAA
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' cuUCAGUGA--GGGUCCGUCGACGUu 5'
            |||:|||  ::: |||| ||||| 
Target 5' acAGTTACTAGTTTTGGCACCTGCAa 3'
 217 - 242 144.00 -20.50
2 
miRNA  3' cuucAGUGAGGGU--CCGUCGACGUu 5'
              |:::||| |    :||:|||| 
Target 5' aggaTTGTTCCAAATACTAGTTGCAc 3'
 725 - 750 134.00 -13.70
3 
miRNA  3' cuucAGUGAGGGUCCGUCGACGuu 5'
              | :||| | || :|||||  
Target 5' atccTAGCTCACTGGAGGCTGCtg 3'
 1651 - 1674 128.00 -17.00
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30155132 2 COSMIC
COSN28869908 13 COSMIC
COSN30499746 59 COSMIC
COSN30520943 89 COSMIC
COSN16372591 143 COSMIC
COSN31610174 186 COSMIC
COSN9926119 358 COSMIC
COSN7875513 388 COSMIC
COSN29287509 433 COSMIC
COSN31492323 474 COSMIC
COSN30515444 517 COSMIC
COSN14139810 533 COSMIC
COSN31525385 544 COSMIC
COSN20069471 594 COSMIC
COSN30167562 605 COSMIC
COSM6779083 663 COSMIC
COSM4985624 672 COSMIC
COSN30100136 697 COSMIC
COSN510676 729 COSMIC
COSN30476059 734 COSMIC
COSN31612586 753 COSMIC
COSN7875512 871 COSMIC
COSN30165701 950 COSMIC
COSN31596610 985 COSMIC
COSN16239698 1156 COSMIC
COSN28800485 1203 COSMIC
COSN8491869 1238 COSMIC
COSN31569398 1307 COSMIC
COSN31555521 1328 COSMIC
COSN29554476 1358 COSMIC
COSN30176673 1451 COSMIC
COSN26465534 1458 COSMIC
COSN26465758 1474 COSMIC
COSN27718843 1511 COSMIC
COSN31565006 1531 COSMIC
COSN32069237 1609 COSMIC
COSN31962459 1625 COSMIC
COSN25316588 1713 COSMIC
COSN2071074 1750 COSMIC
COSN5589656 1788 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs139317752 2 dbSNP
rs1190741045 3 dbSNP
rs753058110 5 dbSNP
rs576452926 6 dbSNP
rs1201445692 10 dbSNP
rs377426029 21 dbSNP
rs749991684 23 dbSNP
rs368058390 26 dbSNP
rs1346048821 28 dbSNP
rs766991422 31 dbSNP
rs1290701747 36 dbSNP
rs1216076876 39 dbSNP
rs1454422881 43 dbSNP
rs970328964 45 dbSNP
rs756944123 50 dbSNP
rs953972681 52 dbSNP
rs753871679 68 dbSNP
rs1401891842 76 dbSNP
rs1285766761 82 dbSNP
rs1408049429 83 dbSNP
rs1029565948 86 dbSNP
rs1366043954 90 dbSNP
rs1218163680 97 dbSNP
rs184814826 98 dbSNP
rs1027222532 111 dbSNP
rs1318400925 114 dbSNP
rs995548862 117 dbSNP
rs1285121356 121 dbSNP
rs747679667 122 dbSNP
rs138750964 137 dbSNP
rs998137036 140 dbSNP
rs547975213 150 dbSNP
rs1185738009 151 dbSNP
rs1477636753 167 dbSNP
rs1462066820 168 dbSNP
rs747801774 169 dbSNP
rs542859509 174 dbSNP
rs1421167664 177 dbSNP
rs893941875 183 dbSNP
rs1285037296 186 dbSNP
rs1008286434 189 dbSNP
rs1239588374 197 dbSNP
rs1351341983 203 dbSNP
rs1436361742 208 dbSNP
rs778463239 213 dbSNP
rs1279683986 214 dbSNP
rs1374866573 220 dbSNP
rs1237239832 223 dbSNP
rs1055281754 224 dbSNP
rs1317084042 226 dbSNP
rs17167331 231 dbSNP
rs1049576729 236 dbSNP
rs996616238 239 dbSNP
rs906775698 240 dbSNP
rs1205120279 242 dbSNP
rs903818762 246 dbSNP
rs1046720666 247 dbSNP
rs1176800500 249 dbSNP
rs1043615857 251 dbSNP
rs1432424227 256 dbSNP
rs749053957 263 dbSNP
rs1317009026 265 dbSNP
rs1412055644 270 dbSNP
rs1405360334 271 dbSNP
rs17167328 273 dbSNP
rs1037161444 275 dbSNP
rs1443968210 287 dbSNP
rs941139063 290 dbSNP
rs1166038757 302 dbSNP
rs1282271236 304 dbSNP
rs1445816139 308 dbSNP
rs772782206 308 dbSNP
rs1355370793 309 dbSNP
rs1413482939 310 dbSNP
rs909651545 315 dbSNP
rs985302229 317 dbSNP
rs953918055 327 dbSNP
rs1315941888 331 dbSNP
rs1180543501 339 dbSNP
rs1056634887 359 dbSNP
rs939087266 360 dbSNP
rs926349527 361 dbSNP
rs568521410 368 dbSNP
rs539001624 370 dbSNP
rs980292412 372 dbSNP
rs1169406139 373 dbSNP
rs571341453 382 dbSNP
rs1406156368 383 dbSNP
rs922482956 389 dbSNP
rs556154532 392 dbSNP
rs537720195 396 dbSNP
rs554790169 397 dbSNP
rs756041374 407 dbSNP
rs567228175 414 dbSNP
rs1339455809 416 dbSNP
rs750419342 417 dbSNP
rs974310627 419 dbSNP
rs1276053414 421 dbSNP
rs781229493 423 dbSNP
rs1323584795 427 dbSNP
rs549122995 432 dbSNP
rs1398641584 438 dbSNP
rs762667339 440 dbSNP
rs143049667 444 dbSNP
rs1433309564 445 dbSNP
rs1357691020 450 dbSNP
rs1442021043 458 dbSNP
rs1175587661 471 dbSNP
rs1470360452 473 dbSNP
rs1265771543 474 dbSNP
rs1431474598 475 dbSNP
rs765335372 480 dbSNP
rs1476759838 483 dbSNP
rs1418709217 489 dbSNP
rs1186953421 490 dbSNP
rs1470678335 506 dbSNP
rs759536141 509 dbSNP
rs375018653 510 dbSNP
rs535100544 510 dbSNP
rs754638385 515 dbSNP
rs764718740 517 dbSNP
rs771107460 519 dbSNP
rs747072611 520 dbSNP
rs773329250 521 dbSNP
rs906704657 527 dbSNP
rs772280205 528 dbSNP
rs368197230 533 dbSNP
rs1296889530 535 dbSNP
rs1320109753 538 dbSNP
rs192757651 558 dbSNP
rs1399089420 560 dbSNP
rs993764134 564 dbSNP
rs186635260 565 dbSNP
rs1303271177 566 dbSNP
rs544228511 571 dbSNP
rs1028360885 574 dbSNP
rs896802604 577 dbSNP
rs532000486 579 dbSNP
rs941056623 580 dbSNP
rs149032639 589 dbSNP
rs1216272809 591 dbSNP
rs144868019 595 dbSNP
rs1420445503 602 dbSNP
rs572579152 606 dbSNP
rs779233809 609 dbSNP
rs1377374768 610 dbSNP
rs371219361 612 dbSNP
rs1160086898 614 dbSNP
rs749763318 618 dbSNP
rs780495092 620 dbSNP
rs1329473875 621 dbSNP
rs976614590 623 dbSNP
rs756735585 624 dbSNP
rs764234918 626 dbSNP
rs1171026631 627 dbSNP
rs751086924 632 dbSNP
rs763655405 635 dbSNP
rs758067925 643 dbSNP
rs1384987822 644 dbSNP
rs752495585 647 dbSNP
rs1281495771 648 dbSNP
rs765102676 651 dbSNP
rs1196262631 656 dbSNP
rs759587257 663 dbSNP
rs938999043 664 dbSNP
rs1227238555 667 dbSNP
rs776745515 671 dbSNP
rs766374648 697 dbSNP
rs760687685 698 dbSNP
rs765882316 704 dbSNP
rs1247165521 708 dbSNP
rs373257876 710 dbSNP
rs1307326372 714 dbSNP
rs1239919584 716 dbSNP
rs755571039 716 dbSNP
rs1397254778 720 dbSNP
rs1292930530 721 dbSNP
rs1298702609 725 dbSNP
rs1489787382 726 dbSNP
rs1463411567 728 dbSNP
rs958318932 734 dbSNP
rs1208573530 737 dbSNP
rs1267195553 741 dbSNP
rs772238587 745 dbSNP
rs1307878749 748 dbSNP
rs1044830381 749 dbSNP
rs1378128426 751 dbSNP
rs1438659652 753 dbSNP
rs1164032545 757 dbSNP
rs1369968951 757 dbSNP
rs1456393569 758 dbSNP
rs1292872877 760 dbSNP
rs1216377083 763 dbSNP
rs948866607 771 dbSNP
rs1033731071 779 dbSNP
rs1283351802 785 dbSNP
rs1353243363 786 dbSNP
rs980861940 786 dbSNP
rs970859039 790 dbSNP
rs565934423 809 dbSNP
rs1265390900 818 dbSNP
rs1367436016 829 dbSNP
rs776468277 834 dbSNP
rs554223409 840 dbSNP
rs1200025061 852 dbSNP
rs1235808329 857 dbSNP
rs940312270 861 dbSNP
rs545065353 864 dbSNP
rs34654406 866 dbSNP
rs898069721 871 dbSNP
rs116784199 872 dbSNP
rs556093019 877 dbSNP
rs1373607959 878 dbSNP
rs11538045 883 dbSNP
rs1028372296 885 dbSNP
rs975430540 886 dbSNP
rs537860424 895 dbSNP
rs1465105385 897 dbSNP
rs967873301 905 dbSNP
rs11538044 911 dbSNP
rs1381551958 911 dbSNP
rs1394685037 915 dbSNP
rs751201779 928 dbSNP
rs1327577795 931 dbSNP
rs1220992192 935 dbSNP
rs567215969 946 dbSNP
rs3208315 947 dbSNP
rs1203682424 949 dbSNP
rs888118067 951 dbSNP
rs1049461841 963 dbSNP
rs1200169103 966 dbSNP
rs932420537 971 dbSNP
rs1262149130 972 dbSNP
rs367784028 975 dbSNP
rs892407946 986 dbSNP
rs1422757513 996 dbSNP
rs900953707 1000 dbSNP
rs1432681728 1001 dbSNP
rs761147873 1001 dbSNP
rs371704342 1009 dbSNP
rs1464712423 1014 dbSNP
rs945246808 1019 dbSNP
rs913817223 1022 dbSNP
rs1480940126 1024 dbSNP
rs1257183524 1029 dbSNP
rs1196586269 1033 dbSNP
rs904827584 1034 dbSNP
rs989807301 1038 dbSNP
rs1302730034 1055 dbSNP
rs1325171842 1065 dbSNP
rs1263376900 1071 dbSNP
rs936654193 1072 dbSNP
rs1044853032 1079 dbSNP
rs926632142 1089 dbSNP
rs1489154027 1092 dbSNP
rs369268714 1093 dbSNP
rs1262424344 1097 dbSNP
rs1480704357 1110 dbSNP
rs552398594 1140 dbSNP
rs970785272 1141 dbSNP
rs1431730142 1148 dbSNP
rs1175632886 1156 dbSNP
rs199951766 1156 dbSNP
rs765751842 1183 dbSNP
rs1421927650 1189 dbSNP
rs1296701518 1192 dbSNP
rs1437783145 1194 dbSNP
rs1294842026 1200 dbSNP
rs1308577961 1203 dbSNP
rs1393616951 1211 dbSNP
rs1218066030 1214 dbSNP
rs972222348 1216 dbSNP
rs1355356988 1221 dbSNP
rs566587874 1226 dbSNP
rs1331085743 1231 dbSNP
rs1016481452 1232 dbSNP
rs56673597 1235 dbSNP
rs1408490707 1242 dbSNP
rs1173410844 1243 dbSNP
rs908826392 1249 dbSNP
rs987424916 1255 dbSNP
rs777316194 1256 dbSNP
rs11538046 1257 dbSNP
rs996497024 1258 dbSNP
rs1380066797 1267 dbSNP
rs1410031860 1267 dbSNP
rs570281799 1271 dbSNP
rs975483092 1273 dbSNP
rs968133410 1277 dbSNP
rs1022785462 1281 dbSNP
rs988033112 1289 dbSNP
rs1444105644 1292 dbSNP
rs771572978 1293 dbSNP
rs956740301 1297 dbSNP
rs539489935 1310 dbSNP
rs1034954415 1328 dbSNP
rs1243322029 1329 dbSNP
rs1287672805 1334 dbSNP
rs1199505576 1335 dbSNP
rs772651256 1341 dbSNP
rs140159854 1342 dbSNP
rs892302426 1343 dbSNP
rs370887184 1367 dbSNP
rs1223688843 1379 dbSNP
rs1261970198 1383 dbSNP
rs11538043 1386 dbSNP
rs550584492 1387 dbSNP
rs994485437 1389 dbSNP
rs1473340845 1393 dbSNP
rs1402024119 1396 dbSNP
rs1183919520 1410 dbSNP
rs1053682264 1412 dbSNP
rs1405267388 1415 dbSNP
rs898953434 1422 dbSNP
rs936604078 1435 dbSNP
rs1036512838 1436 dbSNP
rs926586982 1437 dbSNP
rs980756740 1438 dbSNP
rs1004393026 1439 dbSNP
rs1309182324 1446 dbSNP
rs1330284657 1448 dbSNP
rs1340651766 1477 dbSNP
rs949402076 1496 dbSNP
rs917964752 1497 dbSNP
rs1378416276 1503 dbSNP
rs1219156948 1504 dbSNP
rs972148910 1508 dbSNP
rs528941395 1509 dbSNP
rs761255441 1513 dbSNP
rs921504488 1526 dbSNP
rs1039703549 1531 dbSNP
rs1443181185 1533 dbSNP
rs946717863 1548 dbSNP
rs561604590 1549 dbSNP
rs1475204827 1550 dbSNP
rs984999787 1552 dbSNP
rs1426341018 1558 dbSNP
rs3836837 1559 dbSNP
rs953743618 1584 dbSNP
rs1029234693 1593 dbSNP
rs1290646527 1595 dbSNP
rs1420387310 1598 dbSNP
rs1379569985 1612 dbSNP
rs549445122 1613 dbSNP
rs1169294399 1625 dbSNP
rs1402521201 1628 dbSNP
rs1415803094 1636 dbSNP
rs1332017501 1640 dbSNP
rs1358359214 1641 dbSNP
rs147725001 1645 dbSNP
rs956570970 1658 dbSNP
rs560434162 1663 dbSNP
rs1446422371 1668 dbSNP
rs927756029 1690 dbSNP
rs1368797625 1693 dbSNP
rs1346050688 1702 dbSNP
rs549736227 1703 dbSNP
rs1440325624 1705 dbSNP
rs1474770626 1710 dbSNP
rs981926068 1712 dbSNP
rs965018084 1719 dbSNP
rs577679972 1721 dbSNP
rs529673020 1732 dbSNP
rs1191914967 1734 dbSNP
rs1377689037 1737 dbSNP
rs1216619906 1748 dbSNP
rs969316515 1749 dbSNP
rs768201886 1751 dbSNP
rs182079127 1757 dbSNP
rs1215041970 1767 dbSNP
rs1299771217 1771 dbSNP
rs1362297613 1773 dbSNP
rs994538017 1776 dbSNP
rs1317806298 1780 dbSNP
rs573994689 1798 dbSNP
rs1331758931 1800 dbSNP
rs892276965 1825 dbSNP
rs1285138180 1829 dbSNP
rs1244531307 1831 dbSNP
rs1338854242 1834 dbSNP
rs1054012549 1835 dbSNP
rs1298037315 1836 dbSNP
rs1000737364 1843 dbSNP
rs1014679353 1844 dbSNP
rs963338737 1844 dbSNP
rs746296753 1847 dbSNP
rs749008292 1848 dbSNP
rs1296466618 1850 dbSNP
rs1426470632 1851 dbSNP
rs1268590038 1853 dbSNP
rs779812155 1854 dbSNP
rs1196077111 1855 dbSNP
rs1045003782 1857 dbSNP
rs1005016667 1866 dbSNP
rs1374399157 1869 dbSNP
rs57066510 1872 dbSNP
rs1051234373 1878 dbSNP
rs1183347012 1891 dbSNP
rs1392732966 1893 dbSNP
rs1388627997 1898 dbSNP
rs1260397085 1906 dbSNP
rs1201026724 1910 dbSNP
rs1453771639 1911 dbSNP
rs745775552 1917 dbSNP
rs1468592545 1919 dbSNP
rs567776859 1920 dbSNP
rs917935159 1922 dbSNP
rs781011580 1925 dbSNP
rs1312008969 1926 dbSNP
rs1036423613 1927 dbSNP
rs757302952 1934 dbSNP
rs1351971298 1937 dbSNP
rs1238712756 1938 dbSNP
rs998292041 1943 dbSNP
rs1207599310 1946 dbSNP
rs1359037535 1946 dbSNP
rs1354712899 1953 dbSNP
rs940752610 1954 dbSNP
rs1180127578 1956 dbSNP
rs533802833 1966 dbSNP
rs540772354 1968 dbSNP
rs145528437 1980 dbSNP
rs1370165750 1992 dbSNP
rs1456309529 2001 dbSNP
rs527442254 2005 dbSNP
rs985355207 2006 dbSNP
rs1162950271 2016 dbSNP
rs1340207637 2017 dbSNP
rs1466150328 2019 dbSNP
rs557953055 2020 dbSNP
rs1276372375 2029 dbSNP
rs1333636490 2029 dbSNP
rs946749075 2031 dbSNP
rs375041456 2037 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
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
THCA -0.42 0 -0.323 0.01 59 Click to see details
PRAD -0.386 0 -0.324 0.01 50 Click to see details
STAD -0.35 0.02 -0.332 0.03 32 Click to see details
BLCA -0.467 0.03 -0.534 0.01 18 Click to see details
BRCA -0.202 0.03 -0.153 0.08 84 Click to see details
ESCA 0.53 0.05 0.409 0.11 11 Click to see details
KICH -0.309 0.07 -0.232 0.13 25 Click to see details
UCEC -0.341 0.08 -0.221 0.18 19 Click to see details
PCPG -0.941 0.11 -1.000 0.5 3 Click to see details
KIRC -0.114 0.18 -0.129 0.15 68 Click to see details
COAD -0.292 0.24 0.024 0.48 8 Click to see details
LUAD 0.216 0.25 0.084 0.4 12 Click to see details
KIRP -0.094 0.3 -0.117 0.26 32 Click to see details
LUSC 0.05 0.38 0.034 0.42 38 Click to see details
LIHC 0.032 0.41 0.064 0.33 49 Click to see details
PAAD -0.073 0.46 -0.400 0.3 4 Click to see details
CHOL 0.023 0.48 0.050 0.45 9 Click to see details
CESC -0.06 0.48 -0.500 0.33 3 Click to see details
HNSC 0.002 0.49 -0.019 0.45 42 Click to see details
HNSC 0.002 0.49 -0.019 0.45 42 Click to see details
HNSC 0.002 0.49 -0.019 0.45 42 Click to see details
195 hsa-miR-1301-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT035957 MRPL10 mitochondrial ribosomal protein L10 1 1
MIRT035958 ZNF816 zinc finger protein 816 1 1
MIRT035959 HDLBP high density lipoprotein binding protein 1 1
MIRT035960 GNG10 G protein subunit gamma 10 1 1
MIRT035961 MICALL1 MICAL like 1 1 1
MIRT035962 CCNH cyclin H 1 1
MIRT035963 RAD23B RAD23 homolog B, nucleotide excision repair protein 1 1
MIRT035964 HIST2H2AC histone cluster 2 H2A family member c 1 1
MIRT035965 PARL presenilin associated rhomboid like 1 1
MIRT035966 TXN thioredoxin 1 1
MIRT035967 CREBBP CREB binding protein 1 1
MIRT035968 CYTB cytochrome b 1 1
MIRT035969 GLI3 GLI family zinc finger 3 1 1
MIRT035970 HMGCS1 3-hydroxy-3-methylglutaryl-CoA synthase 1 1 1
MIRT035971 PREP prolyl endopeptidase 1 1
MIRT035972 COL6A1 collagen type VI alpha 1 chain 1 1
MIRT035973 ATP5A1 ATP synthase, H+ transporting, mitochondrial F1 complex, alpha subunit 1, cardiac muscle 1 1
MIRT035974 ADCY3 adenylate cyclase 3 1 1
MIRT035975 POLB DNA polymerase beta 1 1
MIRT035976 HMGA1 high mobility group AT-hook 1 1 1
MIRT035977 SKP1 S-phase kinase associated protein 1 1 1
MIRT035978 ADD2 adducin 2 1 1
MIRT035979 ANXA11 annexin A11 1 1
MIRT035980 CORO1C coronin 1C 1 1
MIRT035981 MDH2 malate dehydrogenase 2 1 1
MIRT035982 BICD2 BICD cargo adaptor 2 1 1
MIRT035983 SPTBN1 spectrin beta, non-erythrocytic 1 1 1
MIRT035984 CDK5RAP2 CDK5 regulatory subunit associated protein 2 1 1
MIRT035985 POLR3H RNA polymerase III subunit H 1 1
MIRT035986 COX1 cytochrome c oxidase subunit I 1 1
MIRT035987 HEATR2 dynein axonemal assembly factor 5 1 1
MIRT035988 RPS5 ribosomal protein S5 1 1
MIRT035989 CCT3 chaperonin containing TCP1 subunit 3 1 1
MIRT035990 YWHAB tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta 1 1
MIRT035991 RPL3 ribosomal protein L3 1 1
MIRT035992 TMPO thymopoietin 1 1
MIRT035993 COPE coatomer protein complex subunit epsilon 1 1
MIRT035994 NONO non-POU domain containing octamer binding 1 1
MIRT035995 BLCAP bladder cancer associated protein 1 1
MIRT035996 NUP133 nucleoporin 133 1 1
MIRT035997 VCP valosin containing protein 1 1
MIRT035998 ARIH2 ariadne RBR E3 ubiquitin protein ligase 2 1 1
MIRT035999 SON SON DNA binding protein 1 1
MIRT036000 ATP5J ATP synthase, H+ transporting, mitochondrial Fo complex subunit F6 1 1
MIRT036001 VIM vimentin 1 1
MIRT036002 FKBP8 FK506 binding protein 8 1 1
MIRT036003 SPECC1L sperm antigen with calponin homology and coiled-coil domains 1 like 1 1
MIRT036004 ZCCHC14 zinc finger CCHC-type containing 14 1 1
MIRT036005 TXNL4A thioredoxin like 4A 1 1
MIRT036006 UBE2J2 ubiquitin conjugating enzyme E2 J2 1 1
MIRT036007 FOPNL FGFR1OP N-terminal like 1 1
MIRT036008 VDAC1 voltage dependent anion channel 1 1 1
MIRT036009 CDIP1 cell death inducing p53 target 1 1 1
MIRT036010 EBNA1BP2 EBNA1 binding protein 2 1 1
MIRT036011 CD276 CD276 molecule 1 1
MIRT036012 RPS2 ribosomal protein S2 1 1
MIRT036013 USP28 ubiquitin specific peptidase 28 1 1
MIRT036014 ZMIZ1 zinc finger MIZ-type containing 1 1 1
MIRT036015 B4GALT7 beta-1,4-galactosyltransferase 7 1 1
MIRT036016 CAND1 cullin associated and neddylation dissociated 1 1 1
MIRT036017 CCDC104 cilia and flagella associated protein 36 1 1
MIRT036018 IMPDH1 inosine monophosphate dehydrogenase 1 1 1
MIRT036019 ATXN2L ataxin 2 like 1 1
MIRT036020 PARP1 poly(ADP-ribose) polymerase 1 1 1
MIRT036021 TNXB tenascin XB 1 1
MIRT036022 SYNGR1 synaptogyrin 1 1 1
MIRT036023 TUT1 terminal uridylyl transferase 1, U6 snRNA-specific 1 1
MIRT036024 ATXN7L3B ataxin 7 like 3B 1 1
MIRT036025 BCL2L13 BCL2 like 13 1 1
MIRT036026 RBM42 RNA binding motif protein 42 1 1
MIRT036027 HDGF heparin binding growth factor 1 1
MIRT036028 NAT8L N-acetyltransferase 8 like 1 1
MIRT036029 DLST dihydrolipoamide S-succinyltransferase 1 1
MIRT036030 CEP104 centrosomal protein 104 1 1
MIRT036031 NCOR1 nuclear receptor corepressor 1 1 1
MIRT036032 COCH cochlin 1 1
MIRT036033 NUTF2 nuclear transport factor 2 1 1
MIRT036034 KMT2E lysine methyltransferase 2E 1 1
MIRT036035 RANGAP1 Ran GTPase activating protein 1 1 1
MIRT036036 SEPHS2 selenophosphate synthetase 2 1 1
MIRT036037 DYNC1I2 dynein cytoplasmic 1 intermediate chain 2 1 1
MIRT036038 ZCCHC24 zinc finger CCHC-type containing 24 1 1
MIRT036039 TRRAP transformation/transcription domain associated protein 1 1
MIRT036040 INPP4A inositol polyphosphate-4-phosphatase type I A 1 1
MIRT036041 CHN1 chimerin 1 1 1
MIRT036042 FECH ferrochelatase 1 1
MIRT036043 DCTD dCMP deaminase 1 1
MIRT036044 UBA1 ubiquitin like modifier activating enzyme 1 1 1
MIRT036045 PKM pyruvate kinase, muscle 1 1
MIRT036046 SSRP1 structure specific recognition protein 1 1 1
MIRT036047 CELF1 CUGBP Elav-like family member 1 1 1
MIRT036048 TSR2 TSR2, ribosome maturation factor 1 1
MIRT036049 TP53BP2 tumor protein p53 binding protein 2 1 1
MIRT036050 GSG2 histone H3 associated protein kinase 1 1
MIRT036051 WDFY1 WD repeat and FYVE domain containing 1 1 1
MIRT036052 RPA1 replication protein A1 1 1
MIRT036053 TMEM41A transmembrane protein 41A 1 1
MIRT036054 BIRC5 baculoviral IAP repeat containing 5 1 1
MIRT036055 NOP2 NOP2 nucleolar protein 1 1
MIRT036056 PEF1 penta-EF-hand domain containing 1 1 1
MIRT036057 CYB5D1 cytochrome b5 domain containing 1 1 1
MIRT036058 HIGD1A HIG1 hypoxia inducible domain family member 1A 1 1
MIRT036059 WDR61 WD repeat domain 61 1 1
MIRT036060 MINK1 misshapen like kinase 1 1 1
MIRT036061 RPL35A ribosomal protein L35a 1 1
MIRT036062 WNT3 Wnt family member 3 1 1
MIRT036063 SYNJ2 synaptojanin 2 1 1
MIRT036064 CFL1 cofilin 1 1 1
MIRT036065 ALDOA aldolase, fructose-bisphosphate A 1 1
MIRT036066 HIF1AN hypoxia inducible factor 1 alpha subunit inhibitor 1 1
MIRT064841 ZBTB18 zinc finger and BTB domain containing 18 2 4
MIRT090782 MBNL1 muscleblind like splicing regulator 1 2 2
MIRT163227 EDEM1 ER degradation enhancing alpha-mannosidase like protein 1 2 2
MIRT214143 LMNB1 lamin B1 2 2
MIRT291875 ZNF333 zinc finger protein 333 2 2
MIRT292477 ZNF507 zinc finger protein 507 2 2
MIRT306035 SKIL SKI like proto-oncogene 2 2
MIRT443004 TRIOBP TRIO and F-actin binding protein 2 2
MIRT457830 ITPRIP inositol 1,4,5-trisphosphate receptor interacting protein 2 2
MIRT460067 RFTN2 raftlin family member 2 2 2
MIRT460342 ARL14EP ADP ribosylation factor like GTPase 14 effector protein 2 2
MIRT463060 ZNF639 zinc finger protein 639 2 2
MIRT466204 TMED10 transmembrane p24 trafficking protein 10 2 2
MIRT476159 GOLGA8B golgin A8 family member B 2 2
MIRT486953 HLA-B major histocompatibility complex, class I, B 2 2
MIRT492391 SEMA6A semaphorin 6A 2 2
MIRT495050 CTRC chymotrypsin C 2 4
MIRT500010 ABCF2 ATP binding cassette subfamily F member 2 2 8
MIRT501565 PLEKHF2 pleckstrin homology and FYVE domain containing 2 2 4
MIRT502680 CSNK1G3 casein kinase 1 gamma 3 2 8
MIRT503058 CAB39 calcium binding protein 39 2 2
MIRT504615 PLK1 polo like kinase 1 2 2
MIRT505706 SESN2 sestrin 2 2 2
MIRT506197 PHF19 PHD finger protein 19 2 2
MIRT506821 KIF23 kinesin family member 23 2 6
MIRT513782 PAWR pro-apoptotic WT1 regulator 2 6
MIRT527011 MAGI2 membrane associated guanylate kinase, WW and PDZ domain containing 2 2 4
MIRT527806 KLRD1 killer cell lectin like receptor D1 2 2
MIRT537896 DYRK2 dual specificity tyrosine phosphorylation regulated kinase 2 2 4
MIRT537925 DST dystonin 2 2
MIRT540049 FOXC1 forkhead box C1 2 2
MIRT543395 DROSHA drosha ribonuclease III 2 2
MIRT545447 SC5D sterol-C5-desaturase 2 4
MIRT546876 RAB10 RAB10, member RAS oncogene family 2 4
MIRT549419 ACVR2B activin A receptor type 2B 2 2
MIRT551857 ASB6 ankyrin repeat and SOCS box containing 6 2 2
MIRT552453 ZNF410 zinc finger protein 410 2 2
MIRT552772 YIPF6 Yip1 domain family member 6 2 4
MIRT552788 YAF2 YY1 associated factor 2 2 2
MIRT554247 SLAIN2 SLAIN motif family member 2 2 2
MIRT554773 RHEBP1 RHEB pseudogene 1 2 4
MIRT555862 PAIP1 poly(A) binding protein interacting protein 1 2 2
MIRT556475 LIPA lipase A, lysosomal acid type 2 2
MIRT556655 KMT2D lysine methyltransferase 2D 2 4
MIRT558210 EFCAB14 EF-hand calcium binding domain 14 2 4
MIRT558306 DUSP14 dual specificity phosphatase 14 2 2
MIRT558818 CDCA4 cell division cycle associated 4 2 4
MIRT559370 ATP13A3 ATPase 13A3 2 2
MIRT559541 ARGLU1 arginine and glutamate rich 1 2 4
MIRT563022 ZNF680 zinc finger protein 680 2 2
MIRT563036 NBPF12 NBPF member 12 2 2
MIRT563791 SLC28A1 solute carrier family 28 member 1 2 2
MIRT565903 SCAMP2 secretory carrier membrane protein 2 2 2
MIRT566957 LBR lamin B receptor 2 2
MIRT567971 CPEB3 cytoplasmic polyadenylation element binding protein 3 2 2
MIRT570389 TSC22D2 TSC22 domain family member 2 2 2
MIRT575250 Timp3 tissue inhibitor of metalloproteinase 3 2 2
MIRT611519 ZNF25 zinc finger protein 25 2 2
MIRT611592 POTED POTE ankyrin domain family member D 2 2
MIRT614228 NPTXR neuronal pentraxin receptor 2 2
MIRT625933 SCYL3 SCY1 like pseudokinase 3 2 2
MIRT627320 TULP4 tubby like protein 4 2 2
MIRT631516 CTBS chitobiase 2 2
MIRT640705 MRS2 MRS2, magnesium transporter 2 2
MIRT642208 RUVBL2 RuvB like AAA ATPase 2 2 2
MIRT642767 FAM9C family with sequence similarity 9 member C 2 2
MIRT648411 KIAA0146 scaffolding protein involved in DNA repair 1 1
MIRT658045 FUT11 fucosyltransferase 11 2 2
MIRT663720 GLUL glutamate-ammonia ligase 2 2
MIRT698536 TFRC transferrin receptor 2 2
MIRT699988 RPS24 ribosomal protein S24 2 2
MIRT700433 PURB purine rich element binding protein B 2 2
MIRT705890 ADCY9 adenylate cyclase 9 2 2
MIRT706974 XPO5 exportin 5 2 2
MIRT710564 KIAA1958 KIAA1958 2 2
MIRT714070 RUNDC3B RUN domain containing 3B 2 2
MIRT716931 FAM13A family with sequence similarity 13 member A 2 2
MIRT717341 RAB40A RAB40A, member RAS oncogene family 2 2
MIRT717738 MYLK myosin light chain kinase 5 2
MIRT722963 SLC25A26 solute carrier family 25 member 26 2 2
MIRT723470 WIPF2 WAS/WASL interacting protein family member 2 2 2
MIRT732447 STAT3 signal transducer and activator of transcription 3 2 0
MIRT733631 SIRT1 sirtuin 1 3 0
MIRT733632 CCND1 cyclin D1 3 0
MIRT736012 RHEB Ras homolog, mTORC1 binding 3 0
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-1301 Cisplatin 5460033 NSC119875 approved resistant High Gastric Cancer cell line (SGC-7901)
hsa-mir-1301 Cisplatin 5460033 NSC119875 approved resistant High Gastric Cancer cell line (BGC823)
hsa-mir-1301 Dabrafenib 44462760 NSC764134 approved resistant cell line (A375)
hsa-mir-1301 Paclitaxel 36314 NSC125973 approved sensitive cell line (W1)
hsa-mir-1301 Topotecan 60699 NSC609699 approved sensitive cell line (W1)
hsa-mir-1301 Androstenedione 6128 NSC9563 sensitive cell line (MCF-7)
hsa-mir-1301 Androstenedione+Letrozole sensitive cell line (MCF-7)
hsa-mir-1301 Cisplatin 5460033 NSC119875 approved sensitive cell line (BxPC3)
hsa-mir-1301 Cisplatin 5460033 NSC119875 approved resistant cell line (SGC-7901)
hsa-mir-1301 Cisplatin 5460033 NSC119875 approved resistant cell line (BGC-823)
hsa-miR-1301-3p Oxaliplatin 6857599 NSC266046 approved sensitive High Colorectal Cancer cell line (RKO)
hsa-miR-1301-3p Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (SW1990)
hsa-miR-1301-3p Gemcitabine 60750 NSC613327 approved sensitive High Pancreatic Cancer cell line (SW1990)
hsa-miR-1301-3p Plx-4720 24180719 NSC757438 sensitive High Thyroid Cancer cell line (8505c, BCPAP)
hsa-miR-1301-3p Imatinib 5291 NSC743414 approved sensitive Low Chronic Myelogenous Leukemia cell line (K562)
hsa-miR-1301-3p Cisplatin 5460033 NSC119875 approved sensitive High Pancreatic Cancer cell line (BxPC-3)
hsa-miR-1301-3p Dabrafenib 44462760 NSC764134 approved sensitive High Melanoma cell line (A375, IGR37, 501Mel)
hsa-miR-1301-3p Vemurafenib 42611257 NSC761431 approved sensitive High Melanoma cell line (A375, IGR37, 501Mel)
hsa-miR-1301-3p Cisplatin 5460033 NSC119875 approved resistant High Gastric Cancer tissue
hsa-miR-1301-3p Fluorouracil 3385 NSC19893 approved resistant High Gastric Cancer tissue
hsa-miR-1301-3p Trametinib 11707110 NSC758246 approved sensitive High Melanoma cell line (M14) (2uM)
hsa-miR-1301-3p Vemurafenib 42611257 NSC761431 approved sensitive High Melanoma cell line (M14) (50nM)
hsa-miR-1301-3p Vemurafenib 42611257 NSC761431 approved sensitive High Melanoma cell line (M14) (2uM)
hsa-miR-1301-3p Trametinib 11707110 NSC758246 approved sensitive High Melanoma cell line (M14) (50nM)
hsa-miR-1301-3p Epirubicin 41867 NSC256942 approved sensitive Low Osteosarcoma cell line (U-2-OS, SAOS-2)
hsa-miR-1301-3p Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (AsPC-1)
hsa-miR-1301-3p Cisplatin 5460033 NSC119875 approved resistant High Gastric Cancer cell line (SGC-7901, BGC-823)
hsa-miR-1301-3p Cisplatin 5460033 NSC119875 approved resistant High Ovarian Cancer cell line (A2780CP20)
hsa-miR-1301-3p Cisplatin 5460033 NSC119875 approved resistant High Non-Small Cell Lung Cancer cell line (A549)
hsa-miR-1301-3p Oxaliplatin 6857599 NSC266046 approved sensitive High Colorectal Cancer cell line (SW480, HCT-116)
hsa-miR-1301-3p Cisplatin 5460033 NSC119875 approved sensitive High Epithelial Ovarian Cancer cell line (SKOV3)
hsa-miR-1301-3p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-1301-3p Osimertinib 71496458 NSC779217 approved sensitive cell line (HCC827)
hsa-miR-1301-3p Vemurafenib 42611257 NSC761431 approved resistant cell line (451Lu)
hsa-miR-1301-3p Palbociclib 5330286 NSC758247 approved resistant tissue (breast cancer)
hsa-miR-1301-3p Cisplatin 5460033 NSC119875 approved sensitive cell line
hsa-miR-1301-3p Doxorubicin 31703 NSC123127 approved sensitive cell line (HS578T)
hsa-miR-1301-3p Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-1301-3p Tamoxifen+Fulvestrant resistant cell line (LCC9)
hsa-miR-1301-3p Cisplatin 5460033 NSC119875 approved resistant cell line (CP20)
hsa-miR-1301-3p Cisplatin 5460033 NSC119875 approved resistant cell line (CIS)
hsa-miR-1301-3p 4-Hydroxytamoxifen+Tamoxifen sensitive cell line (LY2)
hsa-miR-1301-3p Ethanol+Tamoxifen sensitive cell line (LY2)
hsa-miR-1301-3p Cisplatin 5460033 NSC119875 approved resistant cell line (RPMI2650)
hsa-miR-1301-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)

Error report submission