miRTarBase - #MIRT483200


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pre-miRNA Information
pre-miRNA hsa-mir-548al   
Genomic Coordinates chr11: 74399237 - 74399333
Description Homo sapiens miR-548al stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-548al
Sequence 65| AACGGCAAUGACUUUUGUACCA |86
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 1 11 + 74399301 29233923 MiREDiBase
A-to-I 2 11 + 74399302 29233923 MiREDiBase
A-to-I 11 11 + 74399311 29233923 MiREDiBase
A-to-I 22 11 + 74399322 29233923 MiREDiBase
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1006612080 4 dbSNP
rs1228098884 7 dbSNP
rs515924 8 dbSNP
rs145394973 13 dbSNP
rs1339767076 14 dbSNP
rs1409875902 16 dbSNP
Putative Targets

Gene Information
Gene Symbol PIP4K2A   
Synonyms PI5P4KA, PIP5K2A, PIP5KII-alpha, PIP5KIIA, PIPK
Description phosphatidylinositol-5-phosphate 4-kinase type 2 alpha
Transcript NM_005028   
Expression
Putative miRNA Targets on PIP4K2A
3'UTR of PIP4K2A
(miRNA target sites are highlighted)		 
>PIP4K2A|NM_005028|3'UTR
   1 CCTCCTGCGCAGCCTCGGACAGACATGAACATTGGATGGACAGAGGTGGCTTCGGTGTAGGAAAAATGAAAACCAAACTC
  81 AGTGAAGTACTCATCTTGCAGGAAGCAAACCTCCTTGTTTACATCTTCAGGCCAAGATGACTGATTTGGGGGCTACTCGC
 161 TTTACAGCTACCTGATTTTCCCAGCATCGTTCTAGCTATTTCTGACTTTGTGTATATGTGTGTGTGTGTGTGTTGGGGGG
 241 GGGTGAGTGTGTGCGCGCGTGTGCATTTTAAAAGTCATAAATTAATTAAAACAGATCCACTTCGGTCAGTATGTGTCCCA
 321 ACAAAGACCCTTTGATTCCAGCTATGGCCGAATGAATGAGTGAGTGAGTGAGTGAGTGAATGAACACACGTGTGGGGGAG
 401 GGGAGAAGGAAGTGCATGATGTCAGGCACCGTGTTGGCATCACACAACAAACTGTGGATCAGTTTTTTTTTTTTTTTTTT
 481 TTTTTTGGAGTTGAAAGATGTGAGACAGTATTCAGAATAATGAAGATAATAATGATGATTATTATAATAATGATGATGAT
 561 TCCAAGGAAAAAACCTACAGCGAATGTTCCATTTCTACCCCGCACGCAGACACTCTCCCTAACACTGATAACCTGAGCCC
 641 CCAGCACTGGACGGAAGAATGCTGGCGTCTCCGTGTGTACTGGTTCAGGGTTCTGGCCCCAGCCTTGTCAGGACCCCCTG
 721 GTGTCCAGAGCCCCCACCCCTCCCGCAACAAGCAGCTGATGCCCCAGTGATTCTCTATACATTTTTCACCTCGGCCAATA
 801 TGTCCAGGAAAACTGCTTACTTCTCTTTTCTTGCCTGGAGCCTTCATTGTTCACCCTTACGTTGCAATATAGGAATTAAT
 881 GCTACAAAATAAAAGTAAAGCTTACCTGAAAAGTGCATAGTTTGGGGCAATGGTATCTACATCTCCCACTGTGGGAAAAC
 961 CAGCAAAGCATCAAAACTCTCAATTCTCCTGTTACCAAATGCAGATCTGAATTATAAGATGTTTATGTTTGACCATTGTT
1041 TCAACAATGGGATTTTGTTACGAATTATCCCTTTAACTGAAACCCTCAGTTTTACTGTTTACATTATTAGGAAAACAGGG
1121 ATATCTTTTGAATCTAAAAATTTGATGTACAGCATGTGATTTTTGAAGTTTACATGTAAAGTCACAGTATAGGTGAAATA
1201 ACGTTTGTCATATTTTGAGACGTATCCTGCAGCCATGTTTTTACGTGAGTGTTTTAGTCAAAGTACATGGTAGACAGTCT
1281 TTCACAATAAAAGGAAAAGGATTTTTTTTTCCTCCAAATGTACATTTATCAACCTAATGATTGATTTTTTTAAAAAGAGA
1361 TTTCGCCCCAGTCTGGTTTATGAAAGTTCATTGCCCTAAACTGTGCTGATTGTTTTTAATCAAGTTATAAATTTCCAACC
1441 TAGATCATGTATCTACCAACTCTCCTGCATTTTCCAAAAGGCATTGAGCTTAAATATTAGTCTTGCTTAGAGTAGGTTAT
1521 CCACTTACATGCTGCGCTAAAGCCATGCCTTTGAAACTCCTTGTTTAAAACATGATATGATTTTTGTGGGCAGTTTCAGA
1601 AAAGAAAACAAACAAACAAAAATCGACCCTTTAATTATTACTTGCAACTCAACAGATCTCCCTGCCGTACTGCCTTTTCC
1681 AGGAACTTTACTTCAGGGCTGTCCAGATTGCAGCTGTGCCCCGTGTATGTGGATCTAGTTCACAGAGTCTTTGGAAGCCA
1761 GCAGTCGTGCCCTCCGTATACTGTCCACTCATTTTATGTAGATTTGGTATCCTCAGCAGCCAGTGTTAACACCACTGTCA
1841 CGTAGTGTACAGATTCATCTTTTATGTATTTAAAGTAATCCATACTATGATTTGGTTTTTCCCTGCACCATTAATTCTGG
1921 CATCAGATCAGTTTTTGTGTTGTGAAGTTCTACTGTGGTTTGACCCAAGACCACAACCATGAGACCCTGAAGTAAAGATA
2001 AGGTACACATACATTATTTGAGTAACTGTTTCCTTGGGGGCCAATCTGTGTATGCTTTTAGAAGTTTACAGAATGCTTTT
2081 ATTTTTGTCTATAACAAACAGTCTGTCATTTATTTCTGTTGATAAACCATTTGGACAGAGTGAGGACGTTTGCCCTGTTA
2161 TCTCCTAGTGCTAACAATACACTCCAGTCATGAGCCGGGCTTTACAAATAAAGCACTTTTGATGACTCACAAGATGAATC
2241 CTTTTTTCCTCTGTCCCAATTGTGTGTCTCTGTTCCAAACACATTTTAAATACTCGGTCCTGACAGTGTCTTTAGCTAAT
2321 CCTTGAAGAAATGAAAGTGGAATTGAATCTTTTTAGTTTCTAGA
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' accAUGUUUUC-AGUAACGGCAa 5'
             ||::|||| |||||||| | 
Target 5' gttTATGAAAGTTCATTGCCCTa 3'
 1376 - 1398 147.00 -12.12
2 
miRNA  3' accaUGUUUUCAGUAACGGCAa 5'
              |||:|  ||  |||||| 
Target 5' ctcaACAGATCTCCCTGCCGTa 3'
 1648 - 1669 130.00 -13.90
3 
miRNA  3' acCAUGUUUUCAGUAACGGCAa 5'
            ||: ::| ||  ||||| | 
Target 5' gaGTGAGGACGT--TTGCCCTg 3'
 2138 - 2157 120.00 -5.22
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN31514484 8 COSMIC
COSN13266748 16 COSMIC
COSN13266747 17 COSMIC
COSN31546210 18 COSMIC
COSN31578735 22 COSMIC
COSN18734890 37 COSMIC
COSN30145153 67 COSMIC
COSN26562688 92 COSMIC
COSN30690705 100 COSMIC
COSN31550327 132 COSMIC
COSN31588359 144 COSMIC
COSN31483732 204 COSMIC
COSN31562880 218 COSMIC
COSN31556385 222 COSMIC
COSN19663564 235 COSMIC
COSN20354167 235 COSMIC
COSN16127808 257 COSMIC
COSN30538316 259 COSMIC
COSN22449045 294 COSMIC
COSN20531090 471 COSMIC
COSN6963880 476 COSMIC
COSN20106966 841 COSMIC
COSN6065781 1104 COSMIC
COSN20106960 1302 COSMIC
COSN16690786 1351 COSMIC
COSN15732661 1622 COSMIC
COSN16749375 1810 COSMIC
COSN31960455 1881 COSMIC
COSN20092067 2039 COSMIC
COSN21319146 2086 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs774726450 1 dbSNP
rs1193383291 2 dbSNP
rs1319128154 3 dbSNP
rs372647772 4 dbSNP
rs914556068 5 dbSNP
rs1438341145 7 dbSNP
rs377425892 8 dbSNP
rs758795926 9 dbSNP
rs780341100 11 dbSNP
rs756622792 12 dbSNP
rs768734073 12 dbSNP
rs1412877667 13 dbSNP
rs369363968 16 dbSNP
rs552667872 17 dbSNP
rs1455416020 18 dbSNP
rs964466299 21 dbSNP
rs1245893491 23 dbSNP
rs1171247414 24 dbSNP
rs1187707298 25 dbSNP
rs1486123849 30 dbSNP
rs796911026 31 dbSNP
rs1053454 37 dbSNP
rs566982299 39 dbSNP
rs1330038506 41 dbSNP
rs764862706 45 dbSNP
rs754640918 46 dbSNP
rs753641881 48 dbSNP
rs766127096 49 dbSNP
rs187712490 53 dbSNP
rs182726505 54 dbSNP
rs1005726517 56 dbSNP
rs1330219564 58 dbSNP
rs890030689 59 dbSNP
rs77536949 61 dbSNP
rs1464169035 75 dbSNP
rs1271719645 76 dbSNP
rs1339951821 77 dbSNP
rs995371536 81 dbSNP
rs775797235 82 dbSNP
rs1431686687 85 dbSNP
rs962625853 86 dbSNP
rs1177353974 87 dbSNP
rs1432850226 90 dbSNP
rs998181316 92 dbSNP
rs1451262671 94 dbSNP
rs1197115808 109 dbSNP
rs113138010 111 dbSNP
rs1478405364 116 dbSNP
rs763750601 116 dbSNP
rs1178737456 117 dbSNP
rs1422156563 120 dbSNP
rs1398776882 124 dbSNP
rs1470461940 125 dbSNP
rs896150907 127 dbSNP
rs1042447343 131 dbSNP
rs1293665807 136 dbSNP
rs1389484002 137 dbSNP
rs1384748400 138 dbSNP
rs755655638 140 dbSNP
rs1237540528 143 dbSNP
rs1411142787 149 dbSNP
rs1056180603 152 dbSNP
rs1276225532 157 dbSNP
rs1196191053 158 dbSNP
rs1247016567 159 dbSNP
rs1266110399 160 dbSNP
rs1488254791 163 dbSNP
rs945471964 165 dbSNP
rs913034462 167 dbSNP
rs1264184058 171 dbSNP
rs1054281712 183 dbSNP
rs1263257744 184 dbSNP
rs1488802959 186 dbSNP
rs1193480551 188 dbSNP
rs935858665 189 dbSNP
rs1053456 192 dbSNP
rs532721808 198 dbSNP
rs1041930478 206 dbSNP
rs927176482 210 dbSNP
rs1367407526 214 dbSNP
rs560861305 216 dbSNP
rs113961927 218 dbSNP
rs1491006528 218 dbSNP
rs1491286942 218 dbSNP
rs759985967 218 dbSNP
rs34780922 219 dbSNP
rs1310089966 225 dbSNP
rs971057184 228 dbSNP
rs546640878 230 dbSNP
rs3750705 232 dbSNP
rs113320823 233 dbSNP
rs199721901 233 dbSNP
rs1242749775 234 dbSNP
rs1313466003 234 dbSNP
rs1491175259 234 dbSNP
rs1491418030 234 dbSNP
rs557580749 234 dbSNP
rs1284365022 235 dbSNP
rs201549385 235 dbSNP
rs760739381 235 dbSNP
rs1256120374 236 dbSNP
rs1378257771 236 dbSNP
rs1421541355 236 dbSNP
rs146827323 236 dbSNP
rs746085957 236 dbSNP
rs796222323 236 dbSNP
rs1309237309 237 dbSNP
rs1380472824 237 dbSNP
rs914862532 238 dbSNP
rs1377066858 239 dbSNP
rs386741820 239 dbSNP
rs1040366466 241 dbSNP
rs1302159787 242 dbSNP
rs1376969871 243 dbSNP
rs1239724888 244 dbSNP
rs1394351061 244 dbSNP
rs1404550438 244 dbSNP
rs397897465 244 dbSNP
rs45627240 244 dbSNP
rs1284207055 245 dbSNP
rs1010859436 246 dbSNP
rs1211350408 246 dbSNP
rs1255912546 253 dbSNP
rs147836406 254 dbSNP
rs1482572986 254 dbSNP
rs961427877 255 dbSNP
rs1016675688 256 dbSNP
rs1005674350 257 dbSNP
rs954237860 258 dbSNP
rs561315773 259 dbSNP
rs1161010006 260 dbSNP
rs1433549280 260 dbSNP
rs998857676 261 dbSNP
rs1357299213 270 dbSNP
rs1463466642 272 dbSNP
rs1333392992 274 dbSNP
rs1401096302 277 dbSNP
rs369599863 277 dbSNP
rs1446185991 281 dbSNP
rs1401127507 283 dbSNP
rs973917512 283 dbSNP
rs1220122681 288 dbSNP
rs1379482451 290 dbSNP
rs962596289 298 dbSNP
rs1221023608 303 dbSNP
rs901150725 304 dbSNP
rs1259321772 311 dbSNP
rs555614797 314 dbSNP
rs766984800 323 dbSNP
rs1456906141 326 dbSNP
rs1196282013 329 dbSNP
rs1248078651 337 dbSNP
rs1446376515 338 dbSNP
rs1190346106 339 dbSNP
rs1042786072 341 dbSNP
rs1012583003 344 dbSNP
rs545362133 348 dbSNP
rs1009603848 349 dbSNP
rs759944853 350 dbSNP
rs1351769854 352 dbSNP
rs544760403 354 dbSNP
rs935806513 356 dbSNP
rs1279380497 360 dbSNP
rs192272662 360 dbSNP
rs902301371 360 dbSNP
rs533072479 361 dbSNP
rs575498205 364 dbSNP
rs796268964 368 dbSNP
rs551075555 372 dbSNP
rs200596837 374 dbSNP
rs1291408294 376 dbSNP
rs893298176 376 dbSNP
rs1321906022 380 dbSNP
rs148835349 380 dbSNP
rs368029006 380 dbSNP
rs368266870 380 dbSNP
rs374960111 380 dbSNP
rs375287830 380 dbSNP
rs535892672 380 dbSNP
rs796642988 380 dbSNP
rs1044294148 383 dbSNP
rs950009362 384 dbSNP
rs562928221 385 dbSNP
rs1166194113 386 dbSNP
rs893297224 386 dbSNP
rs1406070072 388 dbSNP
rs145159810 389 dbSNP
rs1348420956 390 dbSNP
rs942959327 394 dbSNP
rs1340381825 399 dbSNP
rs1398728858 405 dbSNP
rs575736015 415 dbSNP
rs1379223448 421 dbSNP
rs1227307781 422 dbSNP
rs1287285501 423 dbSNP
rs972803718 427 dbSNP
rs545211645 430 dbSNP
rs961069735 431 dbSNP
rs1385635103 436 dbSNP
rs574097032 437 dbSNP
rs1238025504 438 dbSNP
rs1473166442 448 dbSNP
rs1181418726 451 dbSNP
rs1383561767 451 dbSNP
rs1421760187 454 dbSNP
rs1395589305 456 dbSNP
rs1159588544 457 dbSNP
rs1360313321 457 dbSNP
rs1399361520 457 dbSNP
rs1336712949 458 dbSNP
rs1446571477 460 dbSNP
rs1330722786 461 dbSNP
rs1291253661 462 dbSNP
rs1290808658 463 dbSNP
rs1308136269 464 dbSNP
rs1420576267 466 dbSNP
rs1351199595 467 dbSNP
rs1359590579 467 dbSNP
rs1267985864 469 dbSNP
rs1279232898 470 dbSNP
rs1441786128 471 dbSNP
rs912552517 471 dbSNP
rs1290925761 472 dbSNP
rs1468910160 472 dbSNP
rs1156629904 473 dbSNP
rs1414428226 473 dbSNP
rs1051069886 474 dbSNP
rs569947541 474 dbSNP
rs1330266943 475 dbSNP
rs1374277190 475 dbSNP
rs1304297820 476 dbSNP
rs200238710 476 dbSNP
rs67930350 476 dbSNP
rs1458785325 477 dbSNP
rs867338148 477 dbSNP
rs1323914918 478 dbSNP
rs1426462891 479 dbSNP
rs1369053881 481 dbSNP
rs1379881748 481 dbSNP
rs1280001161 482 dbSNP
rs1163425277 483 dbSNP
rs1421595036 484 dbSNP
rs1263248232 485 dbSNP
rs1169296967 487 dbSNP
rs1197789713 487 dbSNP
rs1211832643 487 dbSNP
rs1219255727 487 dbSNP
rs1257535789 487 dbSNP
rs1265907255 487 dbSNP
rs1268362595 487 dbSNP
rs1304507802 487 dbSNP
rs1318528931 487 dbSNP
rs1337637098 487 dbSNP
rs1451393518 487 dbSNP
rs1478438861 487 dbSNP
rs777075795 487 dbSNP
rs1428470824 488 dbSNP
rs1344698882 489 dbSNP
rs1266252579 490 dbSNP
rs1414778689 493 dbSNP
rs1359018382 498 dbSNP
rs573022405 501 dbSNP
rs1220641061 503 dbSNP
rs1288645934 507 dbSNP
rs1186703886 509 dbSNP
rs1485059084 510 dbSNP
rs1260312149 513 dbSNP
rs1425027110 527 dbSNP
rs1487759721 528 dbSNP
rs1262844899 529 dbSNP
rs1442428628 530 dbSNP
rs1160179707 531 dbSNP
rs1048244 534 dbSNP
rs1362210492 537 dbSNP
rs1266584235 539 dbSNP
rs954183401 539 dbSNP
rs150193782 540 dbSNP
rs35641572 540 dbSNP
rs542171278 540 dbSNP
rs1028467291 542 dbSNP
rs1244087073 543 dbSNP
rs998410309 546 dbSNP
rs1311803605 549 dbSNP
rs1354826267 549 dbSNP
rs573348213 552 dbSNP
rs918706916 552 dbSNP
rs1484527937 553 dbSNP
rs1200488394 556 dbSNP
rs966004936 557 dbSNP
rs1442287729 558 dbSNP
rs1297827183 560 dbSNP
rs1400780110 561 dbSNP
rs1340197619 566 dbSNP
rs1296112157 572 dbSNP
rs1438832985 575 dbSNP
rs1156689745 577 dbSNP
rs1379233149 580 dbSNP
rs1021244986 581 dbSNP
rs1303455449 582 dbSNP
rs1009964571 585 dbSNP
rs1450596073 587 dbSNP
rs893841148 595 dbSNP
rs111324840 598 dbSNP
rs141467224 601 dbSNP
rs111244668 602 dbSNP
rs1456358333 603 dbSNP
rs1034687380 605 dbSNP
rs762852935 606 dbSNP
rs1170784813 615 dbSNP
rs1238351915 616 dbSNP
rs1480111532 626 dbSNP
rs1175228937 629 dbSNP
rs1477282209 634 dbSNP
rs1055146405 635 dbSNP
rs1421103457 637 dbSNP
rs1048246 638 dbSNP
rs1427197356 642 dbSNP
rs146594118 642 dbSNP
rs1018887377 652 dbSNP
rs1007125215 653 dbSNP
rs891411866 663 dbSNP
rs895720843 666 dbSNP
rs1036976292 667 dbSNP
rs939679428 672 dbSNP
rs909565386 673 dbSNP
rs897167544 675 dbSNP
rs748804871 680 dbSNP
rs539236286 689 dbSNP
rs1219867986 694 dbSNP
rs1243429404 703 dbSNP
rs1258183598 707 dbSNP
rs1317488347 711 dbSNP
rs983812350 712 dbSNP
rs1306512244 714 dbSNP
rs1038396856 715 dbSNP
rs932406112 716 dbSNP
rs1276597843 717 dbSNP
rs921410218 718 dbSNP
rs1420286961 720 dbSNP
rs1409491649 722 dbSNP
rs1331432765 723 dbSNP
rs977321728 724 dbSNP
rs567010710 728 dbSNP
rs1302932264 733 dbSNP
rs1322655615 736 dbSNP
rs965597424 741 dbSNP
rs1384947032 742 dbSNP
rs1344133304 744 dbSNP
rs779751995 745 dbSNP
rs1331429670 746 dbSNP
rs1279444890 753 dbSNP
rs988405306 758 dbSNP
rs957998810 759 dbSNP
rs1212360242 763 dbSNP
rs1397644330 767 dbSNP
rs1291562225 768 dbSNP
rs954062655 771 dbSNP
rs1321964235 772 dbSNP
rs1221406922 773 dbSNP
rs143766959 773 dbSNP
rs1159 777 dbSNP
rs1489175957 777 dbSNP
rs916395689 777 dbSNP
rs542265429 787 dbSNP
rs1378517295 789 dbSNP
rs905269224 792 dbSNP
rs1431943905 793 dbSNP
rs1421951624 798 dbSNP
rs966342721 800 dbSNP
rs1240617537 801 dbSNP
rs1025097379 819 dbSNP
rs1427971732 820 dbSNP
rs1285455596 827 dbSNP
rs1379380766 835 dbSNP
rs1014486783 838 dbSNP
rs989216755 840 dbSNP
rs1312515461 841 dbSNP
rs1158 842 dbSNP
rs3215826 843 dbSNP
rs397719702 843 dbSNP
rs1205731993 845 dbSNP
rs1018442449 846 dbSNP
rs567701965 847 dbSNP
rs1445212260 849 dbSNP
rs895679749 849 dbSNP
rs891303620 855 dbSNP
rs1239311298 860 dbSNP
rs1461871907 860 dbSNP
rs1037327890 861 dbSNP
rs939961424 862 dbSNP
rs745636639 869 dbSNP
rs1159525380 877 dbSNP
rs1407811435 879 dbSNP
rs1274011207 881 dbSNP
rs1230873822 894 dbSNP
rs994399355 901 dbSNP
rs1399487182 906 dbSNP
rs888076386 918 dbSNP
rs1309945005 920 dbSNP
rs1445995042 922 dbSNP
rs1373930487 923 dbSNP
rs1338153845 927 dbSNP
rs1334265555 928 dbSNP
rs1038355990 930 dbSNP
rs1048059290 935 dbSNP
rs1278768852 936 dbSNP
rs932356949 939 dbSNP
rs941450441 945 dbSNP
rs1464902413 946 dbSNP
rs1324372061 949 dbSNP
rs1382578164 950 dbSNP
rs920992911 952 dbSNP
rs1203177895 953 dbSNP
rs113084433 968 dbSNP
rs944172175 972 dbSNP
rs116492026 977 dbSNP
rs757144513 981 dbSNP
rs939141075 983 dbSNP
rs1189775351 988 dbSNP
rs1443206012 989 dbSNP
rs757196516 991 dbSNP
rs1174822125 992 dbSNP
rs988352874 996 dbSNP
rs8341 997 dbSNP
rs1032627796 1005 dbSNP
rs1333740337 1010 dbSNP
rs1239267447 1014 dbSNP
rs1374655398 1018 dbSNP
rs539069932 1021 dbSNP
rs544838642 1021 dbSNP
rs1222911955 1022 dbSNP
rs1261376236 1025 dbSNP
rs1320154670 1026 dbSNP
rs528294023 1035 dbSNP
rs1272648213 1042 dbSNP
rs1436418221 1043 dbSNP
rs910261653 1050 dbSNP
rs969439744 1056 dbSNP
rs987242132 1061 dbSNP
rs1480413441 1062 dbSNP
rs185951018 1062 dbSNP
rs1462089120 1069 dbSNP
rs1166963240 1073 dbSNP
rs990343917 1076 dbSNP
rs1393960094 1083 dbSNP
rs1303539344 1084 dbSNP
rs1339488891 1084 dbSNP
rs1344759398 1090 dbSNP
rs1025467437 1095 dbSNP
rs542553400 1097 dbSNP
rs1331737405 1117 dbSNP
rs1013685091 1118 dbSNP
rs1269761951 1118 dbSNP
rs1337696943 1126 dbSNP
rs1211959807 1127 dbSNP
rs1383591294 1142 dbSNP
rs960122229 1145 dbSNP
rs76451424 1147 dbSNP
rs1220867429 1158 dbSNP
rs1159641665 1163 dbSNP
rs1419613159 1165 dbSNP
rs994368267 1172 dbSNP
rs76630921 1174 dbSNP
rs1473593954 1178 dbSNP
rs571618758 1178 dbSNP
rs1048321423 1180 dbSNP
rs996453040 1181 dbSNP
rs543036149 1184 dbSNP
rs148948464 1198 dbSNP
rs1299947146 1199 dbSNP
rs1385595436 1202 dbSNP
rs1382779821 1203 dbSNP
rs764023973 1205 dbSNP
rs758495715 1209 dbSNP
rs1364148321 1210 dbSNP
rs895150085 1212 dbSNP
rs943805078 1221 dbSNP
rs752789959 1222 dbSNP
rs1185611238 1224 dbSNP
rs557841769 1228 dbSNP
rs114457694 1236 dbSNP
rs765468230 1239 dbSNP
rs1262959809 1244 dbSNP
rs1052595680 1245 dbSNP
rs538807673 1248 dbSNP
rs1183813679 1249 dbSNP
rs1384285827 1254 dbSNP
rs1442486013 1255 dbSNP
rs1215716898 1256 dbSNP
rs1160240138 1267 dbSNP
rs1003643789 1268 dbSNP
rs906351677 1269 dbSNP
rs936861543 1287 dbSNP
rs1382845076 1289 dbSNP
rs1351379153 1293 dbSNP
rs1454714075 1293 dbSNP
rs376407742 1299 dbSNP
rs373575443 1301 dbSNP
rs369500962 1302 dbSNP
rs79330455 1310 dbSNP
rs1450825427 1311 dbSNP
rs34435373 1311 dbSNP
rs397741309 1311 dbSNP
rs925508815 1315 dbSNP
rs1042268033 1320 dbSNP
rs768661415 1324 dbSNP
rs915197474 1337 dbSNP
rs1053718193 1338 dbSNP
rs114937338 1340 dbSNP
rs1203769003 1342 dbSNP
rs1242071707 1347 dbSNP
rs553377905 1351 dbSNP
rs1180220349 1352 dbSNP
rs1229083328 1352 dbSNP
rs1340807046 1358 dbSNP
rs1250940449 1359 dbSNP
rs145770927 1362 dbSNP
rs954493424 1364 dbSNP
rs12265213 1365 dbSNP
rs1405572903 1367 dbSNP
rs1468453873 1386 dbSNP
rs1014997923 1387 dbSNP
rs1004001066 1393 dbSNP
rs961530209 1400 dbSNP
rs952574855 1403 dbSNP
rs1406488487 1413 dbSNP
rs1305417270 1414 dbSNP
rs1026827833 1415 dbSNP
rs996791532 1426 dbSNP
rs899456656 1427 dbSNP
rs747054115 1428 dbSNP
rs1040722672 1438 dbSNP
rs1413095410 1439 dbSNP
rs1017562692 1440 dbSNP
rs1251599607 1443 dbSNP
rs1480181095 1447 dbSNP
rs1175283573 1449 dbSNP
rs550962030 1455 dbSNP
rs181046355 1457 dbSNP
rs892211521 1459 dbSNP
rs1052208550 1462 dbSNP
rs1161598558 1464 dbSNP
rs149808106 1470 dbSNP
rs1200175977 1477 dbSNP
rs1428659445 1480 dbSNP
rs925455096 1483 dbSNP
rs1424661084 1484 dbSNP
rs189628922 1486 dbSNP
rs959606093 1489 dbSNP
rs1045317909 1494 dbSNP
rs528264612 1495 dbSNP
rs948334974 1501 dbSNP
rs186055832 1504 dbSNP
rs542491719 1513 dbSNP
rs777089373 1516 dbSNP
rs1033713357 1520 dbSNP
rs529124056 1524 dbSNP
rs1283248702 1526 dbSNP
rs1222127540 1527 dbSNP
rs1215877438 1529 dbSNP
rs992166209 1535 dbSNP
rs563255432 1536 dbSNP
rs906655726 1539 dbSNP
rs41304595 1542 dbSNP
rs907951235 1543 dbSNP
rs984851715 1551 dbSNP
rs952522535 1556 dbSNP
rs1200054851 1560 dbSNP
rs1026776365 1567 dbSNP
rs1221613854 1571 dbSNP
rs1266770276 1572 dbSNP
rs1477047846 1577 dbSNP
rs1318126897 1578 dbSNP
rs567454783 1586 dbSNP
rs963985770 1591 dbSNP
rs1277229170 1604 dbSNP
rs1009370235 1614 dbSNP
rs375568007 1617 dbSNP
rs1425759926 1621 dbSNP
rs748990817 1621 dbSNP
rs869062364 1621 dbSNP
rs1303066084 1624 dbSNP
rs1019987292 1625 dbSNP
rs1432211024 1635 dbSNP
rs542121086 1635 dbSNP
rs1457417498 1637 dbSNP
rs1360780962 1638 dbSNP
rs1212417725 1640 dbSNP
rs1316766010 1647 dbSNP
rs910199210 1655 dbSNP
rs1051466143 1663 dbSNP
rs564021653 1666 dbSNP
rs373978235 1667 dbSNP
rs1000636806 1669 dbSNP
rs1217980613 1671 dbSNP
rs918970770 1681 dbSNP
rs1485605260 1686 dbSNP
rs903984367 1689 dbSNP
rs1467292698 1694 dbSNP
rs1045246344 1695 dbSNP
rs1445558742 1701 dbSNP
rs1163346592 1707 dbSNP
rs971797442 1708 dbSNP
rs573339369 1713 dbSNP
rs10734041 1714 dbSNP
rs1344064625 1719 dbSNP
rs896734185 1720 dbSNP
rs1428127078 1722 dbSNP
rs536856082 1723 dbSNP
rs1477654260 1729 dbSNP
rs1244950230 1732 dbSNP
rs940672155 1734 dbSNP
rs984761946 1736 dbSNP
rs574346155 1741 dbSNP
rs1224242736 1743 dbSNP
rs959678435 1745 dbSNP
rs1316397810 1748 dbSNP
rs1457779649 1748 dbSNP
rs1245126295 1751 dbSNP
rs557693407 1752 dbSNP
rs982148354 1753 dbSNP
rs1236069035 1758 dbSNP
rs984798773 1764 dbSNP
rs1313651052 1765 dbSNP
rs112189099 1766 dbSNP
rs922053712 1767 dbSNP
rs1455122720 1775 dbSNP
rs1021015085 1776 dbSNP
rs757618459 1780 dbSNP
rs975269327 1781 dbSNP
rs964243378 1782 dbSNP
rs1449692864 1783 dbSNP
rs1337305817 1796 dbSNP
rs1377657294 1805 dbSNP
rs1330776770 1806 dbSNP
rs1032197452 1812 dbSNP
rs181077400 1817 dbSNP
rs1464250059 1819 dbSNP
rs551569454 1822 dbSNP
rs1226609088 1823 dbSNP
rs1052121040 1824 dbSNP
rs1324425601 1835 dbSNP
rs987135630 1841 dbSNP
rs145292593 1842 dbSNP
rs1030676172 1845 dbSNP
rs1205680563 1846 dbSNP
rs941808566 1847 dbSNP
rs1440239562 1851 dbSNP
rs1202283877 1853 dbSNP
rs1429335105 1856 dbSNP
rs910028689 1857 dbSNP
rs1170432178 1860 dbSNP
rs1416327659 1862 dbSNP
rs1000586126 1863 dbSNP
rs566061355 1881 dbSNP
rs938260237 1882 dbSNP
rs1327973078 1885 dbSNP
rs769435709 1889 dbSNP
rs1406673559 1892 dbSNP
rs1283899810 1894 dbSNP
rs1346228850 1895 dbSNP
rs1223047266 1896 dbSNP
rs982367470 1901 dbSNP
rs190567229 1908 dbSNP
rs1484013407 1909 dbSNP
rs1237748534 1910 dbSNP
rs1209015428 1928 dbSNP
rs1012400172 1933 dbSNP
rs896658207 1938 dbSNP
rs1056692993 1950 dbSNP
rs1278641448 1952 dbSNP
rs373178682 1958 dbSNP
rs1196136240 1968 dbSNP
rs1374397419 1969 dbSNP
rs970687107 1985 dbSNP
rs1020983877 1986 dbSNP
rs1355116077 1998 dbSNP
rs1308620197 1999 dbSNP
rs767156133 2002 dbSNP
rs754467086 2004 dbSNP
rs1381588656 2009 dbSNP
rs1388056767 2009 dbSNP
rs1303590076 2012 dbSNP
rs1447609676 2015 dbSNP
rs8412 2026 dbSNP
rs958175744 2028 dbSNP
rs76848610 2035 dbSNP
rs1160247330 2036 dbSNP
rs1228384289 2040 dbSNP
rs528440860 2043 dbSNP
rs1340463836 2048 dbSNP
rs1032579895 2049 dbSNP
rs1293053725 2052 dbSNP
rs886405987 2054 dbSNP
rs1207504794 2055 dbSNP
rs888957123 2056 dbSNP
rs1156285493 2059 dbSNP
rs1030178572 2063 dbSNP
rs549708298 2064 dbSNP
rs139777437 2067 dbSNP
rs1384479453 2071 dbSNP
rs1456306437 2076 dbSNP
rs1160265028 2080 dbSNP
rs1387223593 2082 dbSNP
rs1382904948 2088 dbSNP
rs1180853002 2091 dbSNP
rs564140614 2096 dbSNP
rs1320071932 2098 dbSNP
rs897479262 2098 dbSNP
rs1036016882 2099 dbSNP
rs1243214361 2101 dbSNP
rs1316199601 2101 dbSNP
rs540693909 2101 dbSNP
rs572074709 2102 dbSNP
rs561778632 2105 dbSNP
rs1350754900 2109 dbSNP
rs543199884 2116 dbSNP
rs922001250 2126 dbSNP
rs1207576692 2128 dbSNP
rs975260222 2134 dbSNP
rs1265780839 2138 dbSNP
rs1462402895 2141 dbSNP
rs1183869702 2143 dbSNP
rs942520868 2148 dbSNP
rs1255830724 2152 dbSNP
rs1421900304 2153 dbSNP
rs912404812 2164 dbSNP
rs1488885569 2166 dbSNP
rs1454314755 2168 dbSNP
rs147397323 2171 dbSNP
rs956617429 2177 dbSNP
rs1471066643 2178 dbSNP
rs923890167 2183 dbSNP
rs1394715749 2188 dbSNP
rs537412474 2196 dbSNP
rs557677474 2197 dbSNP
rs7082999 2199 dbSNP
rs117744240 2204 dbSNP
rs938157856 2216 dbSNP
rs967730570 2219 dbSNP
rs1325117889 2220 dbSNP
rs184766643 2226 dbSNP
rs1012425667 2229 dbSNP
rs1482120215 2233 dbSNP
rs1353876550 2248 dbSNP
rs1299779085 2253 dbSNP
rs192578811 2254 dbSNP
rs114389025 2259 dbSNP
rs913889541 2260 dbSNP
rs1035603375 2262 dbSNP
rs777765548 2269 dbSNP
rs1481498640 2271 dbSNP
rs1177402466 2284 dbSNP
rs372591563 2287 dbSNP
rs886689252 2293 dbSNP
rs1358820961 2295 dbSNP
rs1464802864 2296 dbSNP
rs3750704 2306 dbSNP
rs1287007466 2307 dbSNP
rs1409715027 2308 dbSNP
rs1287075496 2312 dbSNP
rs1346827266 2319 dbSNP
rs188875308 2326 dbSNP
rs925359973 2328 dbSNP
rs4748809 2333 dbSNP
rs1251650546 2334 dbSNP
rs953217000 2337 dbSNP
rs1202934441 2339 dbSNP
rs900515500 2340 dbSNP
Experimental Support 1 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 GSM1462573. RNA binding protein: AGO2. Condition:TZM-bl 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 GSM4903833
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_a
Location of target site NM_005028 | 3UTR | UUUAAUUAUUACUUGCAACUCAACAGAUCUCCCUGCCGUACUGCCUUUUCCAGGAACUUUACUUCAGGGCUGUCCAGAUUGCAGCUGUGCCCCGUGUAUGUGGAUCUAGUUCACAGAGUCUUUGGAAGCCAGCAGUCGUGCCCUCCGUAUACUGUCCACUCAUUUUAUGUAGAUUUGGUAUCCUCAGCAGCCAGUGUUAACACCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4903834
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_b
Location of target site NM_005028 | 3UTR | AACUCAACAGAUCUCCCUGCCGUACUGCCUUUUCCAGGAACUUUACUUCAGGGCUGUCCAGAUUGCAGCUGUGCCCCGUGUAUGUGGAUCUAGUUCACAGAGUCUUUGGAAGCCAGCAGUCGUGCCCUCCGUAUACUGUCCACUCAUUUUAUGUAGAUUUGGUAUCCUCAGCAGCCAGUGUUAACACCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4903835
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_c
Location of target site NM_005028 | 3UTR | AAUUAUUACUUGCAACUCAACAGAUCUCCCUGCCGUACUGCCUUUUCCAGGAACUUUACUUCAGGGCUGUCCAGAUUGCAGCUGUGCCCCGUGUAUGUGGAUCUAGUUCACAGAGUCUUUGGAAGCCAGCAGUCGUGCCCUCCGUAUACUGUCCACUCAUUUUAUGUAGAUUUGGUAUCCUCAGCAGCCAGUGUUAACACCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM1462573
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl BaL
Location of target site ENST00000376573.4 | 3UTR | AACUCAACAGAUCUCCCUG
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
15 hsa-miR-548al Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT100248 MRPS18B mitochondrial ribosomal protein S18B 2 2
MIRT466864 STX6 syntaxin 6 2 2
MIRT472971 MSANTD3 Myb/SANT DNA binding domain containing 3 2 2
MIRT477531 EIF4G2 eukaryotic translation initiation factor 4 gamma 2 2 5
MIRT483200 PIP4K2A phosphatidylinositol-5-phosphate 4-kinase type 2 alpha 2 2
MIRT496727 NKD2 naked cuticle homolog 2 2 2
MIRT504947 ZNRF2 zinc and ring finger 2 2 6
MIRT529248 TRIM4 tripartite motif containing 4 2 2
MIRT529477 THUMPD3 THUMP domain containing 3 2 2
MIRT576335 Rapgefl1 Rap guanine nucleotide exchange factor (GEF)-like 1 2 5
MIRT607473 RAPGEFL1 Rap guanine nucleotide exchange factor like 1 2 7
MIRT629228 FAM186A family with sequence similarity 186 member A 2 2
MIRT651501 WT1 Wilms tumor 1 2 2
MIRT662296 SLC29A4 solute carrier family 29 member 4 2 2
MIRT688897 C1GALT1 core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase 1 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-54 Nicotine approved 89594 Microarray Caenorhabditis elegans 23765240 2013 up-regualted
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-548al Doxorubicin 31703 NSC123127 approved sensitive cell line (W1)
hsa-mir-548al Paclitaxel 36314 NSC125973 approved sensitive cell line (A2780)
hsa-mir-548al Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)
hsa-miR-548al Vemurafenib 42611257 NSC761431 approved sensitive cell line (LM17)
hsa-miR-548al Tamoxifen+Fulvestrant resistant cell line (LCC9)
hsa-miR-548al Paclitaxel 36314 NSC125973 approved sensitive cell line (A2780)
hsa-miR-548al Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)
hsa-miR-548al Cisplatin 5460033 NSC119875 approved resistant cell line (MGC-803)
hsa-miR-548al Vemurafenib 42611257 NSC761431 approved resistant cell line (LM16)

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