miRTarBase - #MIRT202580


—
pre-miRNA Information
pre-miRNA hsa-mir-4457   
Genomic Coordinates chr5: 1309310 - 1309377
Description Homo sapiens miR-4457 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4457
Sequence 43| UCACAAGGUAUUGACUGGCGUA |64
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1031676297 8 dbSNP
rs1249861366 14 dbSNP
rs115769169 17 dbSNP
rs968846507 19 dbSNP
rs540870271 20 dbSNP
rs993130937 22 dbSNP
Putative Targets

Gene Information
Gene Symbol PCMTD2   
Synonyms C20orf36
Description protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 2
Transcript NM_001104925   
Other Transcripts NM_018257   
Expression
Putative miRNA Targets on PCMTD2
3'UTR of PCMTD2
(miRNA target sites are highlighted)		 
>PCMTD2|NM_001104925|3'UTR
   1 GTCTCCTGTTTGAAAGGGGGAAATAGGAAGAGCAGATTGCTGAGTGTGAAGTTCGTGCTGCCTGTGTGCTGTTGAAGGGT
  81 CACCTGGAGGCAGACGTTGTGGGGAAGGGAACTGCTGGGCTCATCCACACCATGGTTTTCTTCTAGTTCCTGATTGACCT
 161 CTAAAATTCTATTCAGTTGTATGATTTGTTTACATAGTTCCACAAGACCTTCATTGCATAGAAGATTGTTTTCCCAAAGT
 241 GGAGAGAATCTTCATAGAGAAAAAGAGAAGGCTGTTTCTTTTTCGGCTCTGACGAAACACTGAAGTCTGCGTAAGAGAGA
 321 CTGTTTGATGACCGTCCCTCATGCAACATGCACGGTACTCACTAAAAATGAAAACTGAAGTGGAAACTAACCTGTGTTGC
 401 TTATAAAGTGTGAAAGCACAAGCTTATAAATGTATAAAATCTTTTCTGGGTGTGACGCACCTGCGTCCAAGTTTGAATTT
 481 TTATGATATGTACCACTTAATTACTGGCACTGAGTATCACTGAATTTCTTAGTTTTCTAGTGGGGAAACATTATTGAGAA
 561 GCCCTCCCTTATTTTAAGTAAGTTGATTAAATCTTATGTGAGTTGCCAGTTGTAATTTTTCAAAGGAAAAATTTTGATGG
 641 GGTGGAGGAATGAATTGCCAGATAATCTTTCTGGAATTCCGAGAGAATTCCAAAGAGGGTTTTTTTTTTTTTTTTTAGGA
 721 CATCTTTTGATACCTTTAAAAGAACCACTGTCAAGTAATCCTTAAAAGAATATCTTGGAAAAGGAAACAGATTTTTTCCT
 801 GTGTGTAAGCAATAAGTGAAGTTACATTTGCCCTAACCCTAGGGATGATTCTTTACCCAGTTTTAAAGCCCATCATGGTA
 881 TTCTAAGGTGTTGACACCCTCCATCCTCAGAGCAGGTCGAAAATATTAAATAGACTGGGGACTCTATGATGGGCAGCCTG
 961 TGCTTTTTGACTTCAGTTTGCTATTTTTCTGTGATCACATTAGTACTGATTCATAGATTCTATCTTTTATAATTCTGGAG
1041 AAAAAGATTTGTTAGTTTTGTAATTTTTTTGTAAGACCAAATGTATGTATTTTAGTAGCTCCATTGCATGAGAAGAGTGT
1121 AACTCACACTGACTTGTGATATCAGCCTTCTCTGGGCCTTGTGTGTGGAGAGCTTTCTATCTTACCAAGTGGTAGGGCTA
1201 AAAGAACAACAGCCTTTTTGGTAGTCACATAGCAGAATGATCAGAGTTACATTGCTTATTCCAAAACATTGGTTCTTTTT
1281 AAAACATTTTTTTTTACCCAAAGAAAAGAATAATAGAAATTACTAACAATAAATATAAATTCAGAGTGTTGATATAGGAT
1361 TCAGTATCCAGAGTTTATTTTTAATCTTAATCCTCAGCTTCTTGGGAGTTGCTGGGCTTCAGTGTCTCTGTGGTTTCACC
1441 AGCTTAGCTTGAGCTCTGGTTATTTTGGATCTTTTCTGCTTTTTTTAAGTAACTGAGTCATTTTTACCACACAGTCCAGT
1521 TTGCATGTATAGCTAGGAAACATGTATTGCTCTAGATTGGGCAGTTTAAGTCATTTTAAAGAAAGTTAGTTCATAGTTGT
1601 TGCCTTTTAACTCATAGTCAAGCTTCAGTCTTTCAAAGAGAAATGTGTGATTTTCATTTACTTGCTGATATTTTGTAGTT
1681 TGGAGATCCTTGTGGGCATTATTCTAACTGATACGTAGACACTTACTTGGAAATTTTTGGACATTATATTAAATGAGTGC
1761 TATCTGTGAAATTGGTTATATTAGGTGGCTTGACTAATGTTTTTTCTATAATTGTATATGGACTGCATTTTTAAAAAAAC
1841 CGCATTTGCCTTTATGCTAGATTGTAAAAAATTATATTAGAATGCATAAGACATGTTTTTCCTTCATATGCTAGACTTTT
1921 CCTAGCATTTCGTATTTCTGTGTTGTCAGTGTGTGATTTTTAAACCGGAATTTGGTTTAAAAAAAATCTGGTGGTAATAT
2001 ATGTGAGAAATACTTTGGTGTTTACCTTATGAAAATAAAGGATTGTAAGTAAAGTTTCCTGCGCACCTTATACCAGAATT
2081 CAGTATAATACACTACTTTCTGTTTTCAAACAGATAAATCATAATATAGTCTGTATTATCTGTAAGATCTGTCTTGTAAA
2161 CCACATTCTTGACAACTATTTGCTTTTGAGTAGTTTGTATTTTAATATGTGACTTTTGTCTTGAAAAGTAGTAAAGCCAT
2241 AGACTTGTGCAAAACAAGTTTCAAGTTTATAGATATTAAGTTTGTAATGTGAGCATCAAATGTGTATGTAAAAATACTTT
2321 TTACCAGTCTGGAACTTGGGAAAATCCAGGGAATTTGAAACATAGATTTTAATGAGCTGGTAAACACAAATCATGTCAAT
2401 AAAGGTAGTCAGGATATTTTATCCTTAGCATTGCTTCTGCATCCTGTGTAGGATTCCAATTCTTGAATATGTTCTTTTCA
2481 AAATCTTAAGAAAAGAACCTTTTTTCTTTATTAACATCATGTGTTTACTTTCAGCAAATATTTGTATTACTGCTTGATTC
2561 TGTGACAGTCACAATAGATGTAGAGAAGGCATTATTTTTCATTAATAAATGTGAAATTGGAATGGAAAAAAAAAAAAAAA
2641 AAA
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' augCGG-UCAGUUAUGGAACACu 5'
             |||   || : :||||||| 
Target 5' tcaGCCTTCTCTGGGCCTTGTGt 3'
 1142 - 1164 147.00 -16.00
2 
miRNA  3' augcgGUCAG--UUAU-GGAACACu 5'
               :|||:  :| | ||||||| 
Target 5' ttttgTAGTTTGGAGATCCTTGTGg 3'
 1671 - 1695 147.00 -13.30
3 
miRNA  3' auGCGGUCAGU-U-AUGGAACACu 5'
            :|: | ||| | |: |||||| 
Target 5' agTGTAACTCACACTGACTTGTGa 3'
 1116 - 1139 124.00 -11.40
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN26988241 22 COSMIC
COSN30533625 44 COSMIC
COSN26988240 55 COSMIC
COSN30180931 96 COSMIC
COSN30104340 101 COSMIC
COSN16799798 339 COSMIC
COSN19011577 354 COSMIC
COSN20962905 462 COSMIC
COSN16164338 637 COSMIC
COSN20088153 638 COSMIC
COSN19326606 717 COSMIC
COSN22695141 1116 COSMIC
COSN29545261 1296 COSMIC
COSN32058143 1562 COSMIC
COSN23347618 1692 COSMIC
COSN29186389 2064 COSMIC
COSN1879977 2442 COSMIC
COSN4781591 2486 COSMIC
COSN16394536 2511 COSMIC
rs41279358 899 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs762461385 9 dbSNP
rs1373209982 18 dbSNP
rs1384655309 20 dbSNP
rs1225737150 22 dbSNP
rs1186204960 25 dbSNP
rs140298258 30 dbSNP
rs533538819 31 dbSNP
rs979715873 33 dbSNP
rs1203869758 36 dbSNP
rs776737542 37 dbSNP
rs371752915 38 dbSNP
rs374737090 42 dbSNP
rs752615875 47 dbSNP
rs755987895 49 dbSNP
rs1463819351 50 dbSNP
rs932880426 55 dbSNP
rs1194628482 65 dbSNP
rs1442338143 66 dbSNP
rs1189666964 69 dbSNP
rs1051554095 77 dbSNP
rs891102174 80 dbSNP
rs1250254555 94 dbSNP
rs940139562 98 dbSNP
rs1037060897 100 dbSNP
rs897699963 101 dbSNP
rs78030153 102 dbSNP
rs1168226596 108 dbSNP
rs1399319582 112 dbSNP
rs759333881 114 dbSNP
rs1411644662 116 dbSNP
rs35676312 117 dbSNP
rs551223728 133 dbSNP
rs148085913 138 dbSNP
rs200008486 138 dbSNP
rs3077808 138 dbSNP
rs397697396 138 dbSNP
rs1027454145 139 dbSNP
rs1455964179 145 dbSNP
rs1386512813 147 dbSNP
rs1183876630 151 dbSNP
rs1438663483 160 dbSNP
rs1238024725 164 dbSNP
rs905110320 176 dbSNP
rs1439863623 178 dbSNP
rs1274359412 180 dbSNP
rs1209714189 182 dbSNP
rs754005755 182 dbSNP
rs769720406 184 dbSNP
rs879849067 195 dbSNP
rs1002103549 198 dbSNP
rs1395347754 211 dbSNP
rs1247071318 214 dbSNP
rs571323248 219 dbSNP
rs775281109 220 dbSNP
rs1020709159 225 dbSNP
rs1258421263 254 dbSNP
rs967758059 257 dbSNP
rs1312404691 260 dbSNP
rs1403006513 264 dbSNP
rs569035010 269 dbSNP
rs1163660986 274 dbSNP
rs1405363113 275 dbSNP
rs1418773475 275 dbSNP
rs780023823 275 dbSNP
rs1159895449 276 dbSNP
rs980011942 285 dbSNP
rs921420072 286 dbSNP
rs116761945 293 dbSNP
rs987060478 294 dbSNP
rs1490000634 300 dbSNP
rs1271208684 301 dbSNP
rs1223334470 307 dbSNP
rs1282462728 311 dbSNP
rs912587600 311 dbSNP
rs186826579 312 dbSNP
rs374184696 322 dbSNP
rs1463837304 324 dbSNP
rs940023735 333 dbSNP
rs1303630817 345 dbSNP
rs1398854786 346 dbSNP
rs1342877240 350 dbSNP
rs537917759 354 dbSNP
rs1268388307 355 dbSNP
rs41279354 363 dbSNP
rs763492810 373 dbSNP
rs931355682 379 dbSNP
rs1435102483 392 dbSNP
rs1049386376 400 dbSNP
rs1488018840 403 dbSNP
rs904996354 404 dbSNP
rs1196893127 440 dbSNP
rs1447794538 442 dbSNP
rs1277727749 447 dbSNP
rs1221477758 450 dbSNP
rs1325337863 451 dbSNP
rs1002559072 453 dbSNP
rs1217912153 454 dbSNP
rs557940116 457 dbSNP
rs761261912 458 dbSNP
rs192822622 461 dbSNP
rs1020593017 462 dbSNP
rs967809058 473 dbSNP
rs1468596674 476 dbSNP
rs1408699607 483 dbSNP
rs7268486 484 dbSNP
rs41279356 490 dbSNP
rs954222633 491 dbSNP
rs1390657243 494 dbSNP
rs987500655 496 dbSNP
rs1201966970 501 dbSNP
rs1462524534 503 dbSNP
rs1319629489 505 dbSNP
rs912805642 511 dbSNP
rs961571584 515 dbSNP
rs972709672 522 dbSNP
rs184868336 533 dbSNP
rs1214646971 545 dbSNP
rs147350583 547 dbSNP
rs751515355 550 dbSNP
rs1044471584 551 dbSNP
rs1454228310 553 dbSNP
rs926473223 555 dbSNP
rs1290763680 566 dbSNP
rs1327700832 586 dbSNP
rs937856274 590 dbSNP
rs1353284223 592 dbSNP
rs1208547708 598 dbSNP
rs1410637126 599 dbSNP
rs577732265 608 dbSNP
rs752884736 609 dbSNP
rs1009465246 616 dbSNP
rs574257413 624 dbSNP
rs1176419357 630 dbSNP
rs533529648 635 dbSNP
rs769876601 639 dbSNP
rs1472961590 647 dbSNP
rs1205071186 648 dbSNP
rs1184432723 651 dbSNP
rs1414165711 660 dbSNP
rs1320645532 669 dbSNP
rs553876197 671 dbSNP
rs1471557954 672 dbSNP
rs1359698336 675 dbSNP
rs1308005160 679 dbSNP
rs1028072053 681 dbSNP
rs573654698 682 dbSNP
rs1459206311 684 dbSNP
rs1291448024 686 dbSNP
rs1008802252 696 dbSNP
rs954392912 698 dbSNP
rs1365107406 699 dbSNP
rs1252376980 700 dbSNP
rs373019388 700 dbSNP
rs546640821 700 dbSNP
rs549356204 700 dbSNP
rs58055216 700 dbSNP
rs1389488030 701 dbSNP
rs1266227035 702 dbSNP
rs1224089065 704 dbSNP
rs1490351724 706 dbSNP
rs1236374866 707 dbSNP
rs1315546268 717 dbSNP
rs1176786179 718 dbSNP
rs1289653643 719 dbSNP
rs1349222560 723 dbSNP
rs1015801266 725 dbSNP
rs1345449823 732 dbSNP
rs1313995276 735 dbSNP
rs1323892081 738 dbSNP
rs1406877681 740 dbSNP
rs961397687 743 dbSNP
rs1366218010 745 dbSNP
rs1288559845 749 dbSNP
rs1008400782 751 dbSNP
rs6122294 762 dbSNP
rs17492025 769 dbSNP
rs1159549075 791 dbSNP
rs1265148968 792 dbSNP
rs1427122938 792 dbSNP
rs961622375 793 dbSNP
rs6122295 800 dbSNP
rs1490377879 802 dbSNP
rs1249674560 805 dbSNP
rs1260408291 812 dbSNP
rs1482747143 819 dbSNP
rs972930059 826 dbSNP
rs1486633963 828 dbSNP
rs1176574536 829 dbSNP
rs1026970487 831 dbSNP
rs139610148 832 dbSNP
rs1281953906 833 dbSNP
rs980632115 834 dbSNP
rs1331791148 845 dbSNP
rs1294941253 870 dbSNP
rs777877617 871 dbSNP
rs927409795 876 dbSNP
rs938726119 879 dbSNP
rs1289603270 881 dbSNP
rs61395821 882 dbSNP
rs868073639 896 dbSNP
rs41279358 899 dbSNP
rs112619395 901 dbSNP
rs945306878 903 dbSNP
rs1178563495 906 dbSNP
rs1042311972 909 dbSNP
rs1372054871 915 dbSNP
rs371968408 919 dbSNP
rs903558506 920 dbSNP
rs564816789 923 dbSNP
rs1461183587 930 dbSNP
rs1381963405 945 dbSNP
rs1049825006 946 dbSNP
rs1206199629 955 dbSNP
rs1251188714 984 dbSNP
rs1346314810 984 dbSNP
rs889543617 986 dbSNP
rs781213845 997 dbSNP
rs1328239553 999 dbSNP
rs1394711858 1011 dbSNP
rs745871218 1014 dbSNP
rs1452167019 1019 dbSNP
rs569113060 1019 dbSNP
rs1380360969 1021 dbSNP
rs1343191257 1023 dbSNP
rs531449654 1024 dbSNP
rs1272693049 1026 dbSNP
rs1019752071 1028 dbSNP
rs1341561394 1040 dbSNP
rs1463089898 1044 dbSNP
rs1373130583 1051 dbSNP
rs897316046 1051 dbSNP
rs994401010 1057 dbSNP
rs527720714 1065 dbSNP
rs1185828288 1078 dbSNP
rs952855714 1079 dbSNP
rs1194539226 1082 dbSNP
rs1341624613 1086 dbSNP
rs1275409900 1090 dbSNP
rs371269140 1095 dbSNP
rs1245591207 1100 dbSNP
rs142551918 1109 dbSNP
rs1317340707 1111 dbSNP
rs1034740566 1124 dbSNP
rs960164517 1128 dbSNP
rs1449791830 1130 dbSNP
rs1393032174 1137 dbSNP
rs1170105479 1147 dbSNP
rs992899663 1151 dbSNP
rs917781414 1153 dbSNP
rs1386714009 1154 dbSNP
rs945191510 1164 dbSNP
rs1408931294 1173 dbSNP
rs1473345610 1174 dbSNP
rs561480391 1180 dbSNP
rs978040012 1184 dbSNP
rs925234404 1194 dbSNP
rs1253088964 1196 dbSNP
rs936544103 1197 dbSNP
rs1049421891 1198 dbSNP
rs1060285 1205 dbSNP
rs1349737661 1213 dbSNP
rs1446422806 1215 dbSNP
rs1351050567 1218 dbSNP
rs768315877 1230 dbSNP
rs1302399395 1233 dbSNP
rs1402593932 1243 dbSNP
rs943817733 1248 dbSNP
rs1336605149 1251 dbSNP
rs1323866283 1252 dbSNP
rs1399728769 1256 dbSNP
rs1407801762 1263 dbSNP
rs1157201322 1270 dbSNP
rs1040751176 1287 dbSNP
rs1473736765 1287 dbSNP
rs1199262348 1290 dbSNP
rs1479525574 1291 dbSNP
rs994287961 1296 dbSNP
rs1027071783 1297 dbSNP
rs1446623349 1297 dbSNP
rs1366405071 1298 dbSNP
rs1282353621 1306 dbSNP
rs1437652176 1317 dbSNP
rs1206680783 1330 dbSNP
rs888722818 1340 dbSNP
rs1282587141 1343 dbSNP
rs77902931 1345 dbSNP
rs1346894706 1358 dbSNP
rs1274925721 1362 dbSNP
rs1429665395 1367 dbSNP
rs1034383696 1378 dbSNP
rs960296511 1384 dbSNP
rs1459173134 1396 dbSNP
rs189975773 1401 dbSNP
rs753025767 1404 dbSNP
rs1310475055 1411 dbSNP
rs1468696165 1422 dbSNP
rs1014388435 1428 dbSNP
rs1207960960 1429 dbSNP
rs1262364776 1432 dbSNP
rs1020375310 1435 dbSNP
rs1240614270 1440 dbSNP
rs761330606 1443 dbSNP
rs977920509 1450 dbSNP
rs925081764 1463 dbSNP
rs527534520 1469 dbSNP
rs985765842 1480 dbSNP
rs11907846 1481 dbSNP
rs1359188097 1485 dbSNP
rs200141972 1500 dbSNP
rs1271616524 1505 dbSNP
rs1310352409 1509 dbSNP
rs1366459839 1511 dbSNP
rs1336468021 1512 dbSNP
rs943702978 1527 dbSNP
rs1361411936 1533 dbSNP
rs1426703277 1536 dbSNP
rs755809842 1542 dbSNP
rs1417438001 1550 dbSNP
rs552929934 1553 dbSNP
rs1450324444 1557 dbSNP
rs918343551 1558 dbSNP
rs1389936073 1561 dbSNP
rs10485816 1562 dbSNP
rs1484087009 1571 dbSNP
rs1238004824 1575 dbSNP
rs765563133 1577 dbSNP
rs1318947849 1581 dbSNP
rs1305294230 1584 dbSNP
rs1048568975 1587 dbSNP
rs888600895 1588 dbSNP
rs1344883927 1591 dbSNP
rs1437422923 1594 dbSNP
rs1276778069 1596 dbSNP
rs533833914 1602 dbSNP
rs1381737358 1603 dbSNP
rs1303983731 1606 dbSNP
rs529974301 1612 dbSNP
rs1352907807 1614 dbSNP
rs1222905932 1616 dbSNP
rs866282167 1635 dbSNP
rs796820113 1644 dbSNP
rs1329760408 1655 dbSNP
rs753009433 1662 dbSNP
rs1425380586 1669 dbSNP
rs1265972831 1694 dbSNP
rs895855999 1701 dbSNP
rs553494347 1702 dbSNP
rs1446174698 1703 dbSNP
rs1479609690 1704 dbSNP
rs758717683 1716 dbSNP
rs1205256312 1721 dbSNP
rs1248035733 1721 dbSNP
rs1020260607 1728 dbSNP
rs1323921077 1734 dbSNP
rs573542700 1736 dbSNP
rs1476759106 1739 dbSNP
rs1198065654 1744 dbSNP
rs1413423822 1747 dbSNP
rs535982308 1754 dbSNP
rs1223776976 1755 dbSNP
rs967472228 1763 dbSNP
rs555813541 1770 dbSNP
rs1157459235 1773 dbSNP
rs747748800 1779 dbSNP
rs575862086 1781 dbSNP
rs756657753 1788 dbSNP
rs544788962 1806 dbSNP
rs1000250389 1820 dbSNP
rs1032203865 1833 dbSNP
rs1301563195 1833 dbSNP
rs1325774522 1834 dbSNP
rs958091408 1839 dbSNP
rs1348350336 1841 dbSNP
rs985433222 1842 dbSNP
rs1308691066 1843 dbSNP
rs1479853680 1858 dbSNP
rs1351072193 1861 dbSNP
rs1230182684 1863 dbSNP
rs1488597942 1871 dbSNP
rs1259728043 1885 dbSNP
rs1215529347 1898 dbSNP
rs1327478513 1899 dbSNP
rs1290800676 1903 dbSNP
rs911121707 1907 dbSNP
rs1345034572 1912 dbSNP
rs1281439649 1913 dbSNP
rs965232706 1914 dbSNP
rs1288468595 1917 dbSNP
rs976406830 1922 dbSNP
rs918224169 1932 dbSNP
rs574738755 1933 dbSNP
rs1469225633 1935 dbSNP
rs150992961 1967 dbSNP
rs140811501 1968 dbSNP
rs558241071 1979 dbSNP
rs1184380602 1989 dbSNP
rs1463851392 1990 dbSNP
rs1038947618 1995 dbSNP
rs1270407115 1995 dbSNP
rs1228608470 1999 dbSNP
rs1291664837 2002 dbSNP
rs6090097 2027 dbSNP
rs937499976 2028 dbSNP
rs1449504228 2030 dbSNP
rs1295188642 2031 dbSNP
rs1433130725 2044 dbSNP
rs1367182453 2046 dbSNP
rs764307715 2050 dbSNP
rs1451575546 2051 dbSNP
rs1221160277 2060 dbSNP
rs1403826808 2061 dbSNP
rs1174213835 2063 dbSNP
rs896075070 2064 dbSNP
rs1466128344 2065 dbSNP
rs1371962226 2067 dbSNP
rs1167961268 2074 dbSNP
rs751740649 2075 dbSNP
rs541271320 2093 dbSNP
rs1189614416 2095 dbSNP
rs1461117741 2096 dbSNP
rs1254712847 2099 dbSNP
rs1202681937 2105 dbSNP
rs1345857149 2108 dbSNP
rs950254334 2111 dbSNP
rs1041751536 2126 dbSNP
rs1344603007 2128 dbSNP
rs1298524556 2130 dbSNP
rs903169178 2131 dbSNP
rs1338437209 2142 dbSNP
rs1336131315 2160 dbSNP
rs1363658690 2169 dbSNP
rs1473366901 2171 dbSNP
rs1033507518 2174 dbSNP
rs561134571 2179 dbSNP
rs540761859 2186 dbSNP
rs1431030134 2197 dbSNP
rs1390437037 2198 dbSNP
rs1411958255 2199 dbSNP
rs1424221453 2203 dbSNP
rs893673969 2216 dbSNP
rs1367056375 2229 dbSNP
rs1169421415 2232 dbSNP
rs1443487958 2240 dbSNP
rs757342095 2249 dbSNP
rs1007143649 2251 dbSNP
rs1326775439 2266 dbSNP
rs1183326700 2267 dbSNP
rs1484056032 2274 dbSNP
rs1018023442 2277 dbSNP
rs1448561969 2278 dbSNP
rs1222000629 2280 dbSNP
rs1285713674 2282 dbSNP
rs1285713879 2284 dbSNP
rs530067081 2290 dbSNP
rs1335099951 2305 dbSNP
rs965278194 2306 dbSNP
rs1411149134 2308 dbSNP
rs976626060 2328 dbSNP
rs1302192707 2337 dbSNP
rs548983291 2347 dbSNP
rs777441697 2362 dbSNP
rs781466578 2380 dbSNP
rs745782843 2381 dbSNP
rs1250506053 2385 dbSNP
rs550317891 2389 dbSNP
rs1190093932 2392 dbSNP
rs192858067 2400 dbSNP
rs1473644076 2409 dbSNP
rs1236118876 2424 dbSNP
rs992088314 2425 dbSNP
rs1222095237 2430 dbSNP
rs1450094803 2437 dbSNP
rs1444339873 2447 dbSNP
rs947260885 2454 dbSNP
rs960018421 2460 dbSNP
rs889730706 2465 dbSNP
rs1008114428 2471 dbSNP
rs1427982948 2485 dbSNP
rs568874739 2488 dbSNP
rs756069641 2493 dbSNP
rs1282075184 2496 dbSNP
rs62217988 2497 dbSNP
rs1414941588 2499 dbSNP
rs1332469549 2504 dbSNP
rs563747812 2510 dbSNP
rs1406343233 2513 dbSNP
rs1336052652 2515 dbSNP
rs780174833 2515 dbSNP
rs1157645151 2524 dbSNP
rs184498286 2527 dbSNP
rs1413263632 2533 dbSNP
rs758409103 2538 dbSNP
rs1026441698 2545 dbSNP
rs560578236 2554 dbSNP
rs749047007 2556 dbSNP
rs1297958190 2567 dbSNP
rs1060347 2569 dbSNP
rs774040041 2574 dbSNP
rs970734226 2581 dbSNP
rs1446253650 2584 dbSNP
rs1224672189 2595 dbSNP
rs1245959614 2604 dbSNP
rs1250234684 2627 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 GSM545216. RNA binding protein: AGO2. Condition:miR-124 transfection ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' augcggucaguUAUGGAACACu 5'
                     || ||||||| 
Target 5' -----------AU-CCUUGUGg 3'
 		1 - 10
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]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 55251.0
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 GSM714644. RNA binding protein: AGO2. Condition:completeT1 ...

- Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' augcggucagUUAUGGAACACu 5'
                    :|| ||||||| 
Target 5' ----uuuggaGAU-CCUUGUGg 3'
 		1 - 17
Article - Kishore S; Jaskiewicz L; Burger L; Hausser et al.
- Nature methods, 2011
Cross-linking and immunoprecipitation (CLIP) is increasingly used to map transcriptome-wide binding sites of RNA-binding proteins. We developed a method for CLIP data analysis, and applied it to compare CLIP with photoactivatable ribonucleoside-enhanced CLIP (PAR-CLIP) and to uncover how differences in cross-linking and ribonuclease digestion affect the identified sites. We found only small differences in accuracies of these methods in identifying binding sites of HuR, which binds low-complexity sequences, and Argonaute 2, which has a complex binding specificity. We found that cross-link-induced mutations led to single-nucleotide resolution for both PAR-CLIP and CLIP. Our results confirm the expectation from original CLIP publications that RNA-binding proteins do not protect their binding sites sufficiently under the denaturing conditions used during the CLIP procedure, and we show that extensive digestion with sequence-specific RNases strongly biases the recovered binding sites. This bias can be substantially reduced by milder nuclease digestion conditions.
LinkOut: [PMID: 21572407]
Experimental Support 3 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions MCF7
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 SRR1045082. RNA binding protein: AGO2. Condition:Untreated ...

- Farazi TA; Ten Hoeve JJ; Brown M; et al., 2014, Genome biology.

Article - Farazi TA; Ten Hoeve JJ; Brown M; et al.
- Genome biology, 2014
BACKGROUND: Various microRNAs (miRNAs) are up- or downregulated in tumors. However, the repression of cognate miRNA targets responsible for the phenotypic effects of this dysregulation in patients remains largely unexplored. To define miRNA targets and associated pathways, together with their relationship to outcome in breast cancer, we integrated patient-paired miRNA-mRNA expression data with a set of validated miRNA targets and pathway inference. RESULTS: To generate a biochemically-validated set of miRNA-binding sites, we performed argonaute-2 photoactivatable-ribonucleoside-enhanced crosslinking and immunoprecipitation (AGO2-PAR-CLIP) in MCF7 cells. We then defined putative miRNA-target interactions using a computational model, which ranked and selected additional TargetScan-predicted interactions based on features of our AGO2-PAR-CLIP binding-site data. We subselected modeled interactions according to the abundance of their constituent miRNA and mRNA transcripts in tumors, and we took advantage of the variability of miRNA expression within molecular subtypes to detect miRNA repression. Interestingly, our data suggest that miRNA families control subtype-specific pathways; for example, miR-17, miR-19a, miR-25, and miR-200b show high miRNA regulatory activity in the triple-negative, basal-like subtype, whereas miR-22 and miR-24 do so in the HER2 subtype. An independent dataset validated our findings for miR-17 and miR-25, and showed a correlation between the expression levels of miR-182 targets and overall patient survival. Pathway analysis associated miR-17, miR-19a, and miR-200b with leukocyte transendothelial migration. CONCLUSIONS: We combined PAR-CLIP data with patient expression data to predict regulatory miRNAs, revealing potential therapeutic targets and prognostic markers in breast cancer.
LinkOut: [PMID: 24398324]
CLIP-seq Support 1 for dataset GSM545216
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / miR-124 transfection
Location of target site ENST00000308824.6 | 3UTR | AUCCUUGUGGGCAUUAUUCUAAC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM714644
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repA
Location of target site ENST00000308824.6 | 3UTR | UUUGGAGAUCCUUGUGGGCAUUAUUCUAACUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset SRR1045082
Method / RBP PAR-CLIP / AGO2
Cell line / Condition MCF7 / Untreated
Location of target site ENST00000308824.6 | 3UTR | AUCCUUGUGGGCAUUAUUCUAACUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 24398324 / SRX388831
CLIP-seq Viewer Link
MiRNA-Target Expression Profile
Dataset Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
83 hsa-miR-4457 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT098032 SOBP sine oculis binding protein homolog 2 2
MIRT202580 PCMTD2 protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 2 2 6
MIRT247137 WEE1 WEE1 G2 checkpoint kinase 2 4
MIRT349266 PTBP1 polypyrimidine tract binding protein 1 2 2
MIRT363756 EIF4EBP1 eukaryotic translation initiation factor 4E binding protein 1 2 2
MIRT443586 FAM84B family with sequence similarity 84 member B 2 2
MIRT452333 EIF5AL1 eukaryotic translation initiation factor 5A-like 1 2 2
MIRT453864 ZBTB40 zinc finger and BTB domain containing 40 2 4
MIRT471486 PDE4D phosphodiesterase 4D 2 4
MIRT476290 GMFB glia maturation factor beta 2 8
MIRT479897 CCDC117 coiled-coil domain containing 117 2 4
MIRT484251 ANK1 ankyrin 1 2 2
MIRT491473 TMEM214 transmembrane protein 214 2 2
MIRT493804 GAN gigaxonin 2 6
MIRT499252 VAV3 vav guanine nucleotide exchange factor 3 2 4
MIRT502271 HNRNPA1 heterogeneous nuclear ribonucleoprotein A1 2 4
MIRT504651 RPL9 ribosomal protein L9 2 6
MIRT505211 UBN2 ubinuclein 2 2 8
MIRT508952 SNRPB small nuclear ribonucleoprotein polypeptides B and B1 2 4
MIRT512691 POP1 POP1 homolog, ribonuclease P/MRP subunit 2 2
MIRT513320 SCUBE3 signal peptide, CUB domain and EGF like domain containing 3 2 2
MIRT513870 HOXA5 homeobox A5 2 2
MIRT517342 ZNF529 zinc finger protein 529 2 4
MIRT518947 LSG1 large 60S subunit nuclear export GTPase 1 2 2
MIRT520867 SUGT1 SGT1 homolog, MIS12 kinetochore complex assembly cochaperone 2 2
MIRT528325 GIGYF2 GRB10 interacting GYF protein 2 2 2
MIRT531990 SLCO1B3 solute carrier organic anion transporter family member 1B3 2 2
MIRT533298 USP46 ubiquitin specific peptidase 46 2 2
MIRT545257 TRIM36 tripartite motif containing 36 2 4
MIRT547038 POGZ pogo transposable element derived with ZNF domain 2 2
MIRT556103 MOAP1 modulator of apoptosis 1 2 2
MIRT558321 DR1 down-regulator of transcription 1 2 2
MIRT558521 CSRNP3 cysteine and serine rich nuclear protein 3 2 2
MIRT560906 TMED10 transmembrane p24 trafficking protein 10 2 2
MIRT568448 ARPP19 cAMP regulated phosphoprotein 19 2 2
MIRT570586 OTUD7B OTU deubiquitinase 7B 2 2
MIRT572799 SIGLEC14 sialic acid binding Ig like lectin 14 2 2
MIRT573863 C9orf78 chromosome 9 open reading frame 78 2 2
MIRT575058 P2ry1 purinergic receptor P2Y, G-protein coupled 1 2 5
MIRT609931 SLC38A1 solute carrier family 38 member 1 2 4
MIRT610836 ZNF585A zinc finger protein 585A 2 4
MIRT611474 P2RY1 purinergic receptor P2Y1 2 7
MIRT613569 YY2 YY2 transcription factor 2 2
MIRT618626 GREB1 growth regulation by estrogen in breast cancer 1 2 2
MIRT620606 SAP30 Sin3A associated protein 30 2 2
MIRT621017 CLSTN3 calsyntenin 3 2 4
MIRT635314 FAM179A TOG array regulator of axonemal microtubules 2 2 2
MIRT635919 GLTSCR2 NOP53 ribosome biogenesis factor 2 2
MIRT640598 TM9SF4 transmembrane 9 superfamily member 4 2 2
MIRT641784 YWHAB tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta 2 4
MIRT644067 IQCE IQ motif containing E 2 2
MIRT648288 TRAPPC2L trafficking protein particle complex 2 like 2 2
MIRT658085 FOXR2 forkhead box R2 2 2
MIRT659077 DEPTOR DEP domain containing MTOR interacting protein 2 2
MIRT665307 ZBTB37 zinc finger and BTB domain containing 37 2 2
MIRT665975 SYTL4 synaptotagmin like 4 2 2
MIRT666302 SLC25A25 solute carrier family 25 member 25 2 2
MIRT674906 RASSF9 Ras association domain family member 9 2 2
MIRT680086 THAP1 THAP domain containing 1 2 2
MIRT681488 DIP2A disco interacting protein 2 homolog A 2 2
MIRT691244 DFNB59 pejvakin 2 2
MIRT692362 AGTRAP angiotensin II receptor associated protein 2 2
MIRT693035 MB21D1 Mab-21 domain containing 1 2 2
MIRT693837 STAT5A signal transducer and activator of transcription 5A 2 2
MIRT694479 LRTOMT leucine rich transmembrane and O-methyltransferase domain containing 2 2
MIRT696070 ZNF264 zinc finger protein 264 2 2
MIRT696578 TTC21B tetratricopeptide repeat domain 21B 2 2
MIRT696760 MTFMT mitochondrial methionyl-tRNA formyltransferase 2 2
MIRT697307 ZNF652 zinc finger protein 652 2 2
MIRT700152 RNF115 ring finger protein 115 2 2
MIRT701056 PARP2 poly(ADP-ribose) polymerase 2 2 2
MIRT701198 OTUD3 OTU deubiquitinase 3 2 2
MIRT701335 NSD1 nuclear receptor binding SET domain protein 1 2 2
MIRT702656 ITGA3 integrin subunit alpha 3 2 2
MIRT703618 FBXO45 F-box protein 45 2 2
MIRT704673 CHTOP chromatin target of PRMT1 2 2
MIRT708894 ZNF780A zinc finger protein 780A 2 2
MIRT711620 DGKH diacylglycerol kinase eta 2 2
MIRT713745 TMEM81 transmembrane protein 81 2 2
MIRT719712 CD101 CD101 molecule 2 2
MIRT720294 DLGAP3 DLG associated protein 3 2 2
MIRT722606 CCDC152 coiled-coil domain containing 152 2 2
MIRT724566 ACSBG1 acyl-CoA synthetase bubblegum family member 1 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-4 Dexamethasone approved 5743 Microarray primary rat thymocytes 20847043 2010 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-4457 Dabrafenib 44462760 NSC764134 approved sensitive cell line (A375)
hsa-miR-4457 Gefitinib 123631 NSC715055 approved sensitive cell line (PC9)
hsa-miR-4457 Osimertinib 71496458 NSC779217 approved sensitive cell line (PC9)
hsa-miR-4457 Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)

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