miRTarBase - #MIRT463255


—
pre-miRNA Information
pre-miRNA hsa-mir-4742   
Genomic Coordinates chr1: 224398227 - 224398311
Description Homo sapiens miR-4742 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4742-5p
Sequence 1| UCAGGCAAAGGGAUAUUUACAGA |23
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1234293681 4 dbSNP
rs778464201 9 dbSNP
rs758952505 12 dbSNP
rs753463665 16 dbSNP
rs765920862 18 dbSNP
rs1205603801 20 dbSNP
rs756994761 21 dbSNP
Putative Targets

Gene Information
Gene Symbol ZIC5   
Synonyms -
Description Zic family member 5
Transcript NM_033132   
Expression
Putative miRNA Targets on ZIC5
3'UTR of ZIC5
(miRNA target sites are highlighted)		 
>ZIC5|NM_033132|3'UTR
   1 AATTTATTATTAATAATAATAAGTGAAATAATAAGTGGGAGTCCTTGGACCACATCCTAACCTGAGACAATGCCGAGCCT
  81 GAGACAAACCCGTGACTCAGACTTGCCACCGGGTCTAATTAGCCCTATTTATTCAGTATGAAACCCTATGGTGTTTGTAC
 161 ATTTAATTAATTTAATTAAGATATTTGGGCTTTTTTTTTTTTTTTTCTTAAAAAACAAACAAAAAACAACCAAGCTGGAC
 241 TTGTACATTGCAGGAGGATGGGGCTGGGGGCAAATTGTACCAAGGAAAATGAATGGAGAGATTAGTTAATGGCGATACAC
 321 ACTGCCGATGCAATATATATATATATATATATATACATATATATATATATTATTTTTTTTAAAAGGGGGAGAAAAAGAGC
 401 ATTAAGTCAGAACTTAACACAGCACCAAGGCCCTCTGCATTTCCCAGAGTGCCTCTCAAATGCCTTTGACACCATACCAT
 481 GGGCTGCTTTTGAGCCTCCTTGTTGGACCCTAATTCTGCCAAGGCCTCTTGATTGTAAACCACACACCTGCTGCATTGCC
 561 AACAGATCCTGTTCCGTACCTGTGTCCAAAAACATTTGTAAAAACCCTTTGAGTTTAATATTTGTAATTTTTAATTTCCA
 641 CTCTTTTATTACTGATCTTAGCTTAATACAATATTTTTATACAGGATTATTTCTTCAGTATCCTACTGTGTGATTTTAAA
 721 AAAAGATGCAGCAACCTTAATATATCTCCATATCTTGTGCTACTGTGATTGTTCAAGCAAAAGTGGAGAGAAGAAAAGCT
 801 GCTGCAAAAGACAACTGTGAAACTGTGATATTTTATAAAATAGAAGAAATTCAAGTGCTTTCTTTTTCCTATATGTTTTT
 881 TTTTTTTTATCTGAATTCTCAGATACTGCCTCCTAACTGTGTCCAAACTTCTTGTGTAATAAAGAGATTCTGTTTTCGAT
 961 CCTAAGTTCTTTGGGATGCCAACATTCACAGTCAAGTCTTGAGGAGGTGTGATGATGGCATCATGCCTATTTTTTTGGAA
1041 AGCTGTTGTTTTTAAAACAGGCCAACACCTCTTTTATACTGTTGTATCAGCCTTTTAAAAAGTCTATTTTTCAATGCCTG
1121 AAACTGCATTTTAATGCATTTTCTTCCACCTGAGCACTGAGCACACCAAACTGGAATCCATTTGAAAATGACAGTGTGTG
1201 AAGTGTATGATTTACATTAAAAGAGGGGAGGGAGTTGCCATACATATTAAAAATTTTTAAAAGGTTTATAGTTACCACCA
1281 AACACTGATGAATGTGTGACCTTTGCCAGAGCTGTCAAGCTAGGATAAAAAAGGTCAAGGACCTAGGACAATAACTCTTA
1361 GTCGATTTATTTTCGGTTGGTACAACACATCTCCTGTGCAAAATGTAGTCCATCAGAAACATCCTACAGATACACTAAAG
1441 AGCACTAATTTATCCTTAGAGACCCCGAAGACACCCCCTCCCCAGGGTTTGTAGAAATTTGTTTTGTGTGCTGTGAGTGG
1521 TTGATGTAGTCTTGTCATTGTTAATAACTTGTATGTGAACACTATTATTTGTACAGTTGAATTAATTTATTTTCAGACAT
1601 CATCCTTTTTTTTTTTCTTTCCTGGAAGAGTTCAAAGCACACCAAAGAATTATATTATACATTTTGGTGAAAGATTGTCA
1681 TTTATGATCCATGGTTTATTTAAAAAAAAAAGGAAAGAAAATGGAAAAATATATTTTTAAGCTTACTTGAATGAACAACG
1761 TAATGTGAAAACCAAGACTCTTCCTGCATGTCTTTTTTGCATTGTGTTGATAAGATTATATATAGTTTATAGATATATTA
1841 TATTACTAGTACAGTGCATGGTGCTGTCACTTGGAAAGCCTTTCAATGTTGTCTTCAGATTGTTGTGATGAATATGAAAC
1921 ATGCAGACCCTCCTTTATAAAGAAAAAGACCTTAAAACTTGAATATGAGATAATTTTACATTTTAAAAGTTTATTTGATT
2001 TTCATATTATTCACTTTCAAAGCCCTTTCAAATAGAAAAGGTATGAACTTTTGGGGGGATAATTTATGTATCGTAAACTT
2081 ATTAGAACAAAATATTCCTGATGTATAATGAGTTGTTTTATTTATACAACTTTTTCAATGGTAGTTTGCACTATTCTTTA
2161 TTATGCTACAGGTTTATTTATTATGAAACAAAGGAATATGTATTTTATGTATTTTACCATGCATAGGTTAACTCTTTGCC
2241 ACAGATTTATTGGTTCTTGATACACCTAAAATAAAAAAAAATGTGTACCTCCAATAGAGAGCAAGCAAGAATGATTATGA
2321 AGTAACAAATTTAATAAAGGTATTCTTGTTATTATTGCTTATGTTTTACATAATGGCATATCTCTCATACAAATAGAACA
2401 GGTTGCTAATGGAAAAAAAAAAAAAAAAAAA
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' agAC-AUUUAUA---GGGAAACGGACu 5'
            || |:|||:|    |||||||| | 
Target 5' acTGATGAATGTGTGACCTTTGCCAGa 3'
 1284 - 1310 137.00 -20.00
2 
miRNA  3' agaCAUUUAUAGGGAAACGGACu 5'
             ||  || |::|  |||||| 
Target 5' aaaGTCTATTTTTCAATGCCTGa 3'
 1099 - 1121 128.00 -12.60
3 
miRNA  3' agacAUUU-AUAGGGAAACGGacu 5'
              ||:: || |:|||||||   
Target 5' tgcaTAGGTTAACTCTTTGCCaca 3'
 2220 - 2243 127.00 -12.12
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30496234 13 COSMIC
COSN30489545 43 COSMIC
COSN30189541 63 COSMIC
COSN1596396 74 COSMIC
COSN31487948 74 COSMIC
COSN30164041 75 COSMIC
COSN20077911 76 COSMIC
COSN30497261 111 COSMIC
COSN31579671 122 COSMIC
COSN31600363 140 COSMIC
COSN20110943 190 COSMIC
COSN27533310 191 COSMIC
COSN20092800 207 COSMIC
COSN28682094 245 COSMIC
COSN30544844 245 COSMIC
COSN32057173 354 COSMIC
COSN8771271 358 COSMIC
COSN32057489 380 COSMIC
COSN30541041 555 COSMIC
COSN31577567 571 COSMIC
COSN31519447 572 COSMIC
COSN20110939 595 COSMIC
COSN24304660 648 COSMIC
COSN25227266 671 COSMIC
COSN31557655 706 COSMIC
COSN27076014 769 COSMIC
COSN27448150 875 COSMIC
COSN20110933 876 COSMIC
COSN20110938 876 COSMIC
COSN24574110 876 COSMIC
COSN28752938 935 COSMIC
COSN17037895 1254 COSMIC
COSN31550651 1309 COSMIC
COSN31550951 1376 COSMIC
COSN29463251 1389 COSMIC
COSN30158010 1467 COSMIC
COSN20110929 1605 COSMIC
COSN27426865 1606 COSMIC
COSN24603733 1608 COSMIC
COSN31514108 1673 COSMIC
COSN30175847 1701 COSMIC
COSN21145164 1702 COSMIC
COSN31543203 1717 COSMIC
COSN20092799 1735 COSMIC
COSN25603019 1792 COSMIC
COSN19427862 1814 COSMIC
COSN26217625 1879 COSMIC
COSN31591036 1898 COSMIC
COSN31590189 1928 COSMIC
COSN31515602 1948 COSMIC
COSN31538880 2020 COSMIC
COSN1596395 2022 COSMIC
COSN31485677 2040 COSMIC
COSN7389518 2162 COSMIC
COSN31563531 2227 COSMIC
COSN17261416 2241 COSMIC
COSN31577565 2244 COSMIC
COSN31564886 2309 COSMIC
COSN7389517 2345 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1165935492 16 dbSNP
rs750207172 20 dbSNP
rs1389886600 22 dbSNP
rs764305998 23 dbSNP
rs781046589 26 dbSNP
rs367619609 31 dbSNP
rs1220908816 34 dbSNP
rs1222055977 35 dbSNP
rs1283260856 35 dbSNP
rs113531987 36 dbSNP
rs1217775918 37 dbSNP
rs753591452 38 dbSNP
rs537594541 44 dbSNP
rs1226380188 48 dbSNP
rs373741042 51 dbSNP
rs1250059544 52 dbSNP
rs1460198472 56 dbSNP
rs572586426 74 dbSNP
rs980897325 75 dbSNP
rs1157299085 76 dbSNP
rs1466767815 91 dbSNP
rs970082093 92 dbSNP
rs1401589637 97 dbSNP
rs910116105 102 dbSNP
rs533575363 107 dbSNP
rs142412475 110 dbSNP
rs951425053 111 dbSNP
rs551396699 113 dbSNP
rs1341792249 122 dbSNP
rs766606679 127 dbSNP
rs1278835710 147 dbSNP
rs998281430 149 dbSNP
rs1229995000 151 dbSNP
rs1270432448 152 dbSNP
rs965446990 160 dbSNP
rs1036999821 180 dbSNP
rs1203316593 186 dbSNP
rs1195083991 187 dbSNP
rs1339755537 188 dbSNP
rs1485502850 190 dbSNP
rs1231937223 191 dbSNP
rs1444152361 196 dbSNP
rs1179765555 204 dbSNP
rs1043076345 206 dbSNP
rs1161810763 207 dbSNP
rs1360275886 207 dbSNP
rs1427701130 207 dbSNP
rs1491046207 207 dbSNP
rs34614095 207 dbSNP
rs397709361 207 dbSNP
rs59310374 207 dbSNP
rs879040396 207 dbSNP
rs1281103897 208 dbSNP
rs1304316785 208 dbSNP
rs1223915497 210 dbSNP
rs1344591994 210 dbSNP
rs1256751679 211 dbSNP
rs1347403656 216 dbSNP
rs895939312 216 dbSNP
rs868582404 217 dbSNP
rs1483656288 219 dbSNP
rs1057240939 220 dbSNP
rs1328360332 224 dbSNP
rs1200047895 227 dbSNP
rs1480287659 227 dbSNP
rs137963049 231 dbSNP
rs1372746531 236 dbSNP
rs569121319 238 dbSNP
rs1018161504 245 dbSNP
rs1396640202 259 dbSNP
rs1431134127 270 dbSNP
rs1301162844 273 dbSNP
rs1006710652 275 dbSNP
rs1405259334 277 dbSNP
rs1303222485 281 dbSNP
rs1333035972 290 dbSNP
rs1396189557 291 dbSNP
rs913295084 293 dbSNP
rs181127785 296 dbSNP
rs988883773 308 dbSNP
rs1230829338 314 dbSNP
rs944139834 318 dbSNP
rs1438211477 325 dbSNP
rs12869870 326 dbSNP
rs987276074 327 dbSNP
rs561386930 329 dbSNP
rs1042991865 332 dbSNP
rs1280947330 332 dbSNP
rs56236610 333 dbSNP
rs1491438460 334 dbSNP
rs367827737 334 dbSNP
rs1384528337 338 dbSNP
rs188604429 338 dbSNP
rs542977217 339 dbSNP
rs1056691875 341 dbSNP
rs1279212613 343 dbSNP
rs1443156239 344 dbSNP
rs1381472895 345 dbSNP
rs1352530391 346 dbSNP
rs1366220706 350 dbSNP
rs1230622952 351 dbSNP
rs866065823 352 dbSNP
rs1359317834 353 dbSNP
rs773373432 354 dbSNP
rs1269496285 356 dbSNP
rs1399344775 356 dbSNP
rs201552226 356 dbSNP
rs35260873 356 dbSNP
rs56932832 356 dbSNP
rs938467237 357 dbSNP
rs1159642422 358 dbSNP
rs927041909 358 dbSNP
rs963046160 358 dbSNP
rs1178791595 360 dbSNP
rs1378475768 360 dbSNP
rs1315660639 362 dbSNP
rs1045231350 363 dbSNP
rs1269225457 364 dbSNP
rs1330748311 366 dbSNP
rs1415699413 367 dbSNP
rs1405108761 369 dbSNP
rs1242182707 370 dbSNP
rs1004596382 371 dbSNP
rs1182619002 371 dbSNP
rs1248248391 371 dbSNP
rs1358814289 371 dbSNP
rs1413953120 371 dbSNP
rs1418505908 371 dbSNP
rs201198811 371 dbSNP
rs879744386 371 dbSNP
rs948231099 371 dbSNP
rs910010153 372 dbSNP
rs960066895 373 dbSNP
rs1176089602 375 dbSNP
rs1472740853 376 dbSNP
rs1035855363 381 dbSNP
rs527685781 381 dbSNP
rs930188558 385 dbSNP
rs185810285 387 dbSNP
rs1262062885 388 dbSNP
rs918627812 400 dbSNP
rs976748109 401 dbSNP
rs965478013 409 dbSNP
rs1211617639 412 dbSNP
rs1249177393 417 dbSNP
rs770150742 425 dbSNP
rs545416335 426 dbSNP
rs1485183083 428 dbSNP
rs985919684 431 dbSNP
rs1043359096 432 dbSNP
rs1253913307 447 dbSNP
rs968599991 449 dbSNP
rs1011849668 457 dbSNP
rs1021837773 458 dbSNP
rs73567063 463 dbSNP
rs1053533763 471 dbSNP
rs1352877585 476 dbSNP
rs1473719165 478 dbSNP
rs1224389505 485 dbSNP
rs1309117975 496 dbSNP
rs1331567172 498 dbSNP
rs944104608 503 dbSNP
rs181588251 510 dbSNP
rs1274704356 516 dbSNP
rs1367857249 520 dbSNP
rs1220648963 524 dbSNP
rs1291667219 526 dbSNP
rs776929579 528 dbSNP
rs1340778814 535 dbSNP
rs1205266457 540 dbSNP
rs769055367 541 dbSNP
rs912674808 548 dbSNP
rs1489857765 550 dbSNP
rs1221442517 551 dbSNP
rs905648042 568 dbSNP
rs1193095331 569 dbSNP
rs1414559109 573 dbSNP
rs1448881267 574 dbSNP
rs777846648 575 dbSNP
rs747523128 576 dbSNP
rs1429285605 579 dbSNP
rs888631243 580 dbSNP
rs562769260 589 dbSNP
rs921780095 594 dbSNP
rs930283921 595 dbSNP
rs35715709 598 dbSNP
rs796437073 598 dbSNP
rs1286695360 612 dbSNP
rs780580469 616 dbSNP
rs772529296 618 dbSNP
rs1228487431 619 dbSNP
rs907500918 627 dbSNP
rs1413717797 639 dbSNP
rs1227712155 641 dbSNP
rs1290547658 647 dbSNP
rs1323237951 652 dbSNP
rs1213402597 654 dbSNP
rs1246348501 661 dbSNP
rs1464671156 671 dbSNP
rs1162273285 673 dbSNP
rs976779070 682 dbSNP
rs773434060 690 dbSNP
rs1443296513 696 dbSNP
rs543888256 699 dbSNP
rs146182363 712 dbSNP
rs1407365512 714 dbSNP
rs1484881667 716 dbSNP
rs1157459616 717 dbSNP
rs555174139 723 dbSNP
rs985565656 728 dbSNP
rs969172629 729 dbSNP
rs1001690833 735 dbSNP
rs141167048 737 dbSNP
rs1232853541 742 dbSNP
rs989048160 752 dbSNP
rs1446681554 765 dbSNP
rs1021822135 766 dbSNP
rs1358387496 767 dbSNP
rs1221857619 772 dbSNP
rs775484510 777 dbSNP
rs892053818 780 dbSNP
rs1209644369 790 dbSNP
rs955978757 791 dbSNP
rs572792541 796 dbSNP
rs1002715738 803 dbSNP
rs1186933763 812 dbSNP
rs1053120095 815 dbSNP
rs1361946386 828 dbSNP
rs1474091268 828 dbSNP
rs1175823891 843 dbSNP
rs905552915 849 dbSNP
rs1289893142 850 dbSNP
rs866258592 853 dbSNP
rs1160863344 857 dbSNP
rs1403458541 860 dbSNP
rs1023012773 868 dbSNP
rs1334319584 869 dbSNP
rs1006005634 871 dbSNP
rs1350844763 876 dbSNP
rs1439999657 876 dbSNP
rs1008666491 877 dbSNP
rs1323517891 883 dbSNP
rs558030844 886 dbSNP
rs1049770177 887 dbSNP
rs539774202 888 dbSNP
rs1444615172 889 dbSNP
rs1473084507 889 dbSNP
rs35809370 889 dbSNP
rs76712721 889 dbSNP
rs769653107 889 dbSNP
rs778599018 889 dbSNP
rs796944652 889 dbSNP
rs1184802893 890 dbSNP
rs1426514976 891 dbSNP
rs1477529144 900 dbSNP
rs148269537 901 dbSNP
rs1403777013 903 dbSNP
rs1037504836 905 dbSNP
rs930124859 906 dbSNP
rs1307270822 907 dbSNP
rs1334464600 908 dbSNP
rs897300232 912 dbSNP
rs1041337895 920 dbSNP
rs1281222054 923 dbSNP
rs570069704 939 dbSNP
rs1329533477 943 dbSNP
rs550764223 944 dbSNP
rs535672007 957 dbSNP
rs1347166197 958 dbSNP
rs777476987 961 dbSNP
rs1274476557 963 dbSNP
rs1251180697 964 dbSNP
rs1213117261 967 dbSNP
rs1265753957 982 dbSNP
rs911233582 984 dbSNP
rs1450661515 985 dbSNP
rs1050184341 988 dbSNP
rs1379033964 989 dbSNP
rs1267448041 991 dbSNP
rs1202866798 992 dbSNP
rs573993146 995 dbSNP
rs1296946585 1002 dbSNP
rs914622475 1004 dbSNP
rs928298503 1006 dbSNP
rs1390710543 1007 dbSNP
rs1235257914 1024 dbSNP
rs1431597315 1030 dbSNP
rs1231205272 1037 dbSNP
rs979825440 1050 dbSNP
rs969799942 1058 dbSNP
rs1021769810 1061 dbSNP
rs1333060500 1063 dbSNP
rs553728105 1064 dbSNP
rs1297042947 1076 dbSNP
rs1343458789 1078 dbSNP
rs1231318411 1079 dbSNP
rs990760832 1084 dbSNP
rs1300691328 1090 dbSNP
rs1210809347 1106 dbSNP
rs1269008783 1106 dbSNP
rs988689119 1106 dbSNP
rs955883542 1114 dbSNP
rs928444914 1127 dbSNP
rs1032366739 1132 dbSNP
rs1450818724 1138 dbSNP
rs752391191 1167 dbSNP
rs1162552887 1178 dbSNP
rs1008490571 1190 dbSNP
rs891101742 1193 dbSNP
rs1164840162 1194 dbSNP
rs1396954052 1195 dbSNP
rs781077129 1196 dbSNP
rs969943040 1202 dbSNP
rs996852118 1203 dbSNP
rs1365957484 1204 dbSNP
rs1460292034 1208 dbSNP
rs1311116523 1216 dbSNP
rs1340464579 1226 dbSNP
rs1353660659 1228 dbSNP
rs1022671355 1232 dbSNP
rs1245986613 1233 dbSNP
rs898618731 1240 dbSNP
rs1326618420 1245 dbSNP
rs867172790 1247 dbSNP
rs1169181650 1250 dbSNP
rs951859684 1253 dbSNP
rs1465808239 1254 dbSNP
rs1026496516 1255 dbSNP
rs190146332 1259 dbSNP
rs1193157767 1263 dbSNP
rs1189321472 1265 dbSNP
rs9517941 1268 dbSNP
rs1456526073 1269 dbSNP
rs1158651246 1270 dbSNP
rs1389658146 1274 dbSNP
rs1269752056 1276 dbSNP
rs1301243293 1278 dbSNP
rs1175651387 1290 dbSNP
rs1397176836 1300 dbSNP
rs1348974388 1319 dbSNP
rs938631502 1332 dbSNP
rs560329975 1333 dbSNP
rs1207407645 1338 dbSNP
rs369026474 1340 dbSNP
rs979774631 1343 dbSNP
rs1202059307 1348 dbSNP
rs1275849016 1355 dbSNP
rs1008517989 1357 dbSNP
rs185521005 1362 dbSNP
rs143167334 1363 dbSNP
rs765406859 1364 dbSNP
rs914548574 1367 dbSNP
rs956371371 1369 dbSNP
rs567801144 1374 dbSNP
rs1031856240 1375 dbSNP
rs149117707 1376 dbSNP
rs1053629859 1382 dbSNP
rs1309088818 1383 dbSNP
rs573906642 1388 dbSNP
rs1217165428 1391 dbSNP
rs1300191506 1402 dbSNP
rs766365904 1405 dbSNP
rs1389285139 1410 dbSNP
rs561814133 1412 dbSNP
rs1308466179 1422 dbSNP
rs1272309934 1424 dbSNP
rs1431391642 1426 dbSNP
rs866980274 1428 dbSNP
rs374736887 1430 dbSNP
rs969974289 1433 dbSNP
rs572778130 1435 dbSNP
rs984698504 1443 dbSNP
rs1424733193 1449 dbSNP
rs1466635293 1450 dbSNP
rs1175669350 1455 dbSNP
rs372249350 1466 dbSNP
rs776893761 1467 dbSNP
rs1356591628 1470 dbSNP
rs1337849042 1474 dbSNP
rs3825508 1477 dbSNP
rs898566529 1478 dbSNP
rs1418771744 1481 dbSNP
rs193123041 1483 dbSNP
rs1017462968 1489 dbSNP
rs965777184 1502 dbSNP
rs1294823265 1505 dbSNP
rs1341349351 1508 dbSNP
rs1019832308 1509 dbSNP
rs1008382070 1518 dbSNP
rs1275068179 1519 dbSNP
rs1319632389 1520 dbSNP
rs1220576872 1524 dbSNP
rs890072448 1529 dbSNP
rs367936429 1537 dbSNP
rs1047560714 1538 dbSNP
rs1246316438 1540 dbSNP
rs111995265 1542 dbSNP
rs1189727874 1544 dbSNP
rs1201481182 1548 dbSNP
rs1422272847 1552 dbSNP
rs893128662 1558 dbSNP
rs574841086 1561 dbSNP
rs1403894760 1562 dbSNP
rs1164581317 1566 dbSNP
rs1350100397 1569 dbSNP
rs907155111 1579 dbSNP
rs1053013439 1586 dbSNP
rs1318159555 1588 dbSNP
rs1044083956 1591 dbSNP
rs757888615 1595 dbSNP
rs1345152999 1597 dbSNP
rs1257293147 1599 dbSNP
rs1236232099 1602 dbSNP
rs1328128506 1605 dbSNP
rs934787847 1611 dbSNP
rs914251919 1616 dbSNP
rs1447012902 1617 dbSNP
rs1464443546 1617 dbSNP
rs571401354 1617 dbSNP
rs1189307907 1618 dbSNP
rs1181619877 1621 dbSNP
rs1288511450 1622 dbSNP
rs1411442458 1623 dbSNP
rs1476410494 1624 dbSNP
rs990280363 1627 dbSNP
rs934427705 1630 dbSNP
rs1353274289 1635 dbSNP
rs1457300878 1637 dbSNP
rs1333462813 1644 dbSNP
rs1396577008 1647 dbSNP
rs1319798105 1653 dbSNP
rs1357328115 1654 dbSNP
rs557293859 1658 dbSNP
rs1284731416 1659 dbSNP
rs1357082462 1660 dbSNP
rs535602418 1675 dbSNP
rs1404237360 1676 dbSNP
rs924738101 1677 dbSNP
rs34294450 1691 dbSNP
rs987019692 1694 dbSNP
rs1440796383 1697 dbSNP
rs568201618 1699 dbSNP
rs1453141432 1700 dbSNP
rs1209987933 1701 dbSNP
rs549452100 1702 dbSNP
rs1161572252 1710 dbSNP
rs1045572196 1711 dbSNP
rs1162146460 1712 dbSNP
rs1486826903 1712 dbSNP
rs1410765058 1714 dbSNP
rs948570584 1721 dbSNP
rs1472737622 1727 dbSNP
rs915723241 1733 dbSNP
rs534059874 1739 dbSNP
rs749946660 1741 dbSNP
rs985116443 1756 dbSNP
rs930544287 1759 dbSNP
rs867930069 1760 dbSNP
rs1188645690 1766 dbSNP
rs1377207916 1776 dbSNP
rs975371756 1781 dbSNP
rs1444688131 1799 dbSNP
rs1260251790 1800 dbSNP
rs971720201 1801 dbSNP
rs1464040926 1804 dbSNP
rs1268427029 1806 dbSNP
rs1229818047 1809 dbSNP
rs1332167224 1814 dbSNP
rs566841222 1820 dbSNP
rs1018692937 1822 dbSNP
rs1016955463 1825 dbSNP
rs1218737845 1825 dbSNP
rs1281651781 1825 dbSNP
rs1342200406 1828 dbSNP
rs985848362 1832 dbSNP
rs1203419637 1833 dbSNP
rs142428648 1835 dbSNP
rs567529264 1846 dbSNP
rs1244625963 1847 dbSNP
rs1389439282 1849 dbSNP
rs1173779217 1856 dbSNP
rs1396803566 1869 dbSNP
rs1026560175 1875 dbSNP
rs1002747896 1877 dbSNP
rs34419269 1878 dbSNP
rs1028449780 1879 dbSNP
rs1322849153 1886 dbSNP
rs189324003 1887 dbSNP
rs1329630621 1897 dbSNP
rs533177655 1905 dbSNP
rs1435841168 1907 dbSNP
rs907102857 1909 dbSNP
rs1350654207 1917 dbSNP
rs1226773566 1918 dbSNP
rs1393953352 1929 dbSNP
rs1164208780 1940 dbSNP
rs1473978373 1948 dbSNP
rs1044305151 1949 dbSNP
rs893378399 1970 dbSNP
rs1450745767 1975 dbSNP
rs1371913766 1985 dbSNP
rs1193077142 1993 dbSNP
rs1254386807 1995 dbSNP
rs892753281 1998 dbSNP
rs1031658759 2007 dbSNP
rs998800963 2014 dbSNP
rs562802376 2023 dbSNP
rs1054134845 2024 dbSNP
rs1463322928 2028 dbSNP
rs768945894 2031 dbSNP
rs934397211 2032 dbSNP
rs1326854879 2038 dbSNP
rs907186488 2040 dbSNP
rs924423848 2050 dbSNP
rs1297438242 2058 dbSNP
rs764728869 2072 dbSNP
rs1157856081 2073 dbSNP
rs1051681161 2082 dbSNP
rs1264090372 2087 dbSNP
rs1355179906 2094 dbSNP
rs1213872862 2097 dbSNP
rs1274671611 2100 dbSNP
rs761132682 2103 dbSNP
rs948793975 2104 dbSNP
rs550904269 2105 dbSNP
rs894308006 2115 dbSNP
rs1207624631 2117 dbSNP
rs1262344875 2118 dbSNP
rs1048880347 2122 dbSNP
rs1288620256 2124 dbSNP
rs930594482 2138 dbSNP
rs1210279109 2144 dbSNP
rs934190239 2148 dbSNP
rs184262635 2150 dbSNP
rs775784401 2151 dbSNP
rs548008864 2160 dbSNP
rs944367419 2160 dbSNP
rs1455698406 2167 dbSNP
rs1227530881 2169 dbSNP
rs1386269258 2183 dbSNP
rs772582607 2189 dbSNP
rs1311231031 2192 dbSNP
rs1340179070 2194 dbSNP
rs562173642 2198 dbSNP
rs531531224 2199 dbSNP
rs909841403 2200 dbSNP
rs1227212967 2206 dbSNP
rs1486575687 2208 dbSNP
rs1365783126 2211 dbSNP
rs985877867 2217 dbSNP
rs1255389105 2218 dbSNP
rs1299940860 2218 dbSNP
rs953122004 2223 dbSNP
rs1028941521 2227 dbSNP
rs1420286102 2242 dbSNP
rs1438726350 2244 dbSNP
rs540309805 2252 dbSNP
rs1158442911 2262 dbSNP
rs1330811816 2265 dbSNP
rs115776014 2266 dbSNP
rs1407489414 2267 dbSNP
rs1394746969 2272 dbSNP
rs191393101 2273 dbSNP
rs545772794 2274 dbSNP
rs1415782746 2281 dbSNP
rs1022804796 2282 dbSNP
rs1222801258 2282 dbSNP
rs779197327 2282 dbSNP
rs971194506 2282 dbSNP
rs146744635 2283 dbSNP
rs1230453045 2289 dbSNP
rs575317644 2291 dbSNP
rs1255327324 2305 dbSNP
rs1348584737 2309 dbSNP
rs1212710448 2312 dbSNP
rs1189947588 2330 dbSNP
rs1452027771 2340 dbSNP
rs1482616847 2342 dbSNP
rs1176791806 2343 dbSNP
rs1251535682 2348 dbSNP
rs1420946828 2357 dbSNP
rs1245826278 2370 dbSNP
rs778450410 2372 dbSNP
rs907216092 2374 dbSNP
rs1024226692 2375 dbSNP
rs1435940108 2384 dbSNP
rs1176104674 2387 dbSNP
rs893085468 2387 dbSNP
rs1441941737 2388 dbSNP
rs16957100 2392 dbSNP
rs1204113103 2394 dbSNP
rs1375147331 2399 dbSNP
rs114278857 2410 dbSNP
rs1276689584 2414 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 GSM545217. RNA binding protein: AGO2. Condition:miR-7 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' agacauuUAUAGGGAAACGGACu 5'
                 || |::|  |||||| 
Target 5' ------uAUUUUUCAAUGCCUGa 3'
 		1 - 17
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 TZM-bl
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... PAR-CLIP data was present in GSM1462574. RNA binding protein: AGO2. Condition:TZM-bl ami BaL ...

- Whisnant AW; Bogerd HP; Flores O; Ho P; et al., 2013, mBio.

Article - Whisnant AW; Bogerd HP; Flores O; Ho P; et al.
- mBio, 2013
UNLABELLED: The question of how HIV-1 interfaces with cellular microRNA (miRNA) biogenesis and effector mechanisms has been highly controversial. Here, we first used deep sequencing of small RNAs present in two different infected cell lines (TZM-bl and C8166) and two types of primary human cells (CD4(+) peripheral blood mononuclear cells [PBMCs] and macrophages) to unequivocally demonstrate that HIV-1 does not encode any viral miRNAs. Perhaps surprisingly, we also observed that infection of T cells by HIV-1 has only a modest effect on the expression of cellular miRNAs at early times after infection. Comprehensive analysis of miRNA binding to the HIV-1 genome using the photoactivatable ribonucleoside-induced cross-linking and immunoprecipitation (PAR-CLIP) technique revealed several binding sites for cellular miRNAs, a subset of which were shown to be capable of mediating miRNA-mediated repression of gene expression. However, the main finding from this analysis is that HIV-1 transcripts are largely refractory to miRNA binding, most probably due to extensive viral RNA secondary structure. Together, these data demonstrate that HIV-1 neither encodes viral miRNAs nor strongly influences cellular miRNA expression, at least early after infection, and imply that HIV-1 transcripts have evolved to avoid inhibition by preexisting cellular miRNAs by adopting extensive RNA secondary structures that occlude most potential miRNA binding sites. IMPORTANCE: MicroRNAs (miRNAs) are a ubiquitous class of small regulatory RNAs that serve as posttranscriptional regulators of gene expression. Previous work has suggested that HIV-1 might subvert the function of the cellular miRNA machinery by expressing viral miRNAs or by dramatically altering the level of cellular miRNA expression. Using very sensitive approaches, we now demonstrate that neither of these ideas is in fact correct. Moreover, HIV-1 transcripts appear to largely avoid regulation by cellular miRNAs by adopting an extensive RNA secondary structure that occludes the ability of cellular miRNAs to interact with viral mRNAs. Together, these data suggest that HIV-1, rather than seeking to control miRNA function in infected cells, has instead evolved a mechanism to become largely invisible to cellular miRNA effector mechanisms.
LinkOut: [PMID: 23592263]
CLIP-seq Support 1 for dataset GSM545217
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / miR-7 transfection
Location of target site ENST00000267294.4 | 3UTR | UAUUUUUCAAUGCCUGAAACU
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 GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000267294.4 | 3UTR | AAACUGCAUUUUAAUGCAUUUUCUUCCACCUGAGCACUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23592263 / GSE59944
CLIP-seq Viewer Link
MiRNA-Target Expression Profile
Dataset Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
70 hsa-miR-4742-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT065632 CLIC4 chloride intracellular channel 4 2 4
MIRT068170 TXLNA taxilin alpha 2 2
MIRT119024 TSN translin 2 2
MIRT165212 GRAMD3 GRAM domain containing 2B 2 2
MIRT175254 PSAT1 phosphoserine aminotransferase 1 2 4
MIRT213228 REST RE1 silencing transcription factor 2 6
MIRT296337 PARD6B par-6 family cell polarity regulator beta 2 2
MIRT316776 FOXC1 forkhead box C1 2 2
MIRT453943 XRCC6 X-ray repair cross complementing 6 2 6
MIRT454599 RPL13A ribosomal protein L13a 2 2
MIRT458485 RMI1 RecQ mediated genome instability 1 2 6
MIRT458650 SGPP2 sphingosine-1-phosphate phosphatase 2 2 2
MIRT459240 ADRBK1 G protein-coupled receptor kinase 2 2 2
MIRT461008 SYT7 synaptotagmin 7 2 2
MIRT462026 RIF1 replication timing regulatory factor 1 2 2
MIRT462103 TMEM214 transmembrane protein 214 2 2
MIRT463255 ZIC5 Zic family member 5 2 4
MIRT465190 TRPS1 transcriptional repressor GATA binding 1 2 2
MIRT470507 PPP1R11 protein phosphatase 1 regulatory inhibitor subunit 11 2 2
MIRT472356 TSPAN1 tetraspanin 1 2 2
MIRT473260 MIDN midnolin 2 2
MIRT477527 EIF4G2 eukaryotic translation initiation factor 4 gamma 2 2 4
MIRT485182 PTP4A1 protein tyrosine phosphatase type IVA, member 1 2 4
MIRT486461 MDM2 MDM2 proto-oncogene 2 2
MIRT492760 PER1 period circadian clock 1 2 8
MIRT496703 TRIM39 tripartite motif containing 39 2 2
MIRT497227 MORC2 MORC family CW-type zinc finger 2 2 2
MIRT499582 INTU inturned planar cell polarity protein 2 4
MIRT504081 C9orf40 chromosome 9 open reading frame 40 2 6
MIRT505484 SRSF2 serine and arginine rich splicing factor 2 2 2
MIRT513255 FBXO17 F-box protein 17 2 2
MIRT525061 FRK fyn related Src family tyrosine kinase 2 2
MIRT528798 RAB32 RAB32, member RAS oncogene family 2 2
MIRT534357 SFT2D2 SFT2 domain containing 2 2 2
MIRT538731 CAPN1 calpain 1 2 2
MIRT550792 WARS2 tryptophanyl tRNA synthetase 2, mitochondrial 2 2
MIRT553994 SRPR SRP receptor alpha subunit 2 4
MIRT568102 CDKN1B cyclin dependent kinase inhibitor 1B 2 2
MIRT570107 SLC18B1 solute carrier family 18 member B1 2 2
MIRT570823 RPL7L1 ribosomal protein L7 like 1 2 2
MIRT572004 HMGB1 high mobility group box 1 2 2
MIRT572352 PCYT2 phosphate cytidylyltransferase 2, ethanolamine 2 2
MIRT609716 TMEM132C transmembrane protein 132C 2 2
MIRT613982 LRRC40 leucine rich repeat containing 40 2 2
MIRT620740 CCL16 C-C motif chemokine ligand 16 2 2
MIRT625074 C15orf41 chromosome 15 open reading frame 41 2 4
MIRT627941 NNT nicotinamide nucleotide transhydrogenase 2 2
MIRT629941 IGSF6 immunoglobulin superfamily member 6 2 2
MIRT633396 FBXW8 F-box and WD repeat domain containing 8 2 2
MIRT635846 ZNF264 zinc finger protein 264 2 2
MIRT638086 ZNF652 zinc finger protein 652 2 2
MIRT643996 TCHP trichoplein keratin filament binding 2 2
MIRT660020 C1GALT1 core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase 1 2 2
MIRT660161 BRCC3 BRCA1/BRCA2-containing complex subunit 3 2 2
MIRT668887 CSRP1 cysteine and glycine rich protein 1 2 2
MIRT676729 METTL14 methyltransferase like 14 2 2
MIRT677210 MURC caveolae associated protein 4 2 2
MIRT685949 PTGIS prostaglandin I2 synthase 2 2
MIRT687816 ITPRIPL2 inositol 1,4,5-trisphosphate receptor interacting protein like 2 2 2
MIRT689900 SOD2 superoxide dismutase 2 2 2
MIRT698214 TMEM248 transmembrane protein 248 2 2
MIRT698279 TMEM2 transmembrane protein 2 2 2
MIRT698758 STK4 serine/threonine kinase 4 2 2
MIRT698789 STK38 serine/threonine kinase 38 2 2
MIRT703152 GPR137C G protein-coupled receptor 137C 2 2
MIRT704408 CTPS1 CTP synthase 1 2 2
MIRT705067 C4orf32 family with sequence similarity 241 member A 2 2
MIRT710201 FLVCR1 feline leukemia virus subgroup C cellular receptor 1 2 2
MIRT714495 HSPA4 heat shock protein family A (Hsp70) member 4 2 2
MIRT720082 TNRC6B trinucleotide repeat containing 6B 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4742-5p Imatinib 5291 NSC743414 approved sensitive High Chronic Myelogenous Leukemia tissue
hsa-miR-4742-5p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-4742-5p Osimertinib 71496458 NSC779217 approved resistant cell line (HCC827)
hsa-miR-4742-5p Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-4742-5p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-4742-5p Paclitaxel 36314 NSC125973 approved resistant cell line (BAS)
hsa-miR-4742-5p Paclitaxel 36314 NSC125973 approved sensitive cell line (A2780)
hsa-miR-4742-5p Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)
hsa-miR-4742-5p Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)

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