miRTarBase - #MIRT492535


—
pre-miRNA Information
pre-miRNA hsa-mir-4254   
Genomic Coordinates chr1: 31758660 - 31758735
Description Homo sapiens miR-4254 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4254
Sequence 44| GCCUGGAGCUACUCCACCAUCUC |66
Evidence Experimental
Experiments SOLiD
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1415016281 1 dbSNP
rs564274475 8 dbSNP
rs12731294 9 dbSNP
rs780735773 13 dbSNP
rs1207241221 19 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol PSMD11   
Synonyms Rpn6, S9, p44.5
Description proteasome 26S subunit, non-ATPase 11
Transcript NM_002815   
Expression
Putative miRNA Targets on PSMD11
3'UTR of PSMD11
(miRNA target sites are highlighted)		 
>PSMD11|NM_002815|3'UTR
   1 AGTTGGATCTGTAGCGGTCCTTTGGAGAGTGTGTGTGGCGGGAGAGTGAAACCTTGGGGGAAAATGCTAGGAGATTCTTT
  81 TTTCTTTTTGTTCTACTTTTCGCTCGGAAAGTTTTTAAATCCTCATTTGGTGCATCTGTATTCCAGCCAATAGGTGTGCC
 161 AGTTTTCATGTAATCTTTACTGGCCCAACTTGGGAGTGGGGAAATTGCTTAAAAAAAAAGAAAAAGAAAAAAAAAAAGAT
 241 TATTCTAAATAAAAGGAAAAAGGCTTACACTACCTAAAGCTGTGCTCTCTGCCTCCTGGGAGAGGGCCGCAAAGCCAGGC
 321 ACCCCGCCAACCACTGGGGGTCCTAATCCACCTGCTGGGCATCACCTCTCCTCCTCCTCAGAATTGGGTGTTTGCTGACC
 401 ATCAAAAGCAATGACTTTTTATTCTGTTTGTACTGAACCAAAACAAACAACTGTGTATAGACTGCTGTTTTCTTTTTTAT
 481 TTGAAATGAGGCATTTTGGTGTTCTTTCCCCTACCATACGGCCTGTCTGCCCTTCCCTCCCCACATTGGCTCCAGCAGAG
 561 TAGCCGAAGGTCCTGCCGCCGCCGCCACCACCACCACCACTGCAGCAACAACAGCAGCAGCAGCAGCAGCGCCTGCATAG
 641 CTCCACTCTGACCTGTGAAGGAATGGGGATGAGGCCAGGAGCTAGTGTCTACCACGGCCACACAGGGAGCAGTGTGGGCC
 721 CTTAGCCCCCAAGGGGCCTGCTATGCATGTGGCTTTTTTTTTTTTTTTAAACACAGTAAACTAGATTAGTCGTCAGTGTT
 801 TTAATTGCCCCTCTTCTCCTCTCCTGCATTCCTCTCCTCTCTTCTTTCCTCTCTGTCCCTTCTCTTTCCCCTCTCAACCA
 881 GGAGACCATCATGTCTCTCTGCCTTCCTCCTCTCCCCTCCAGGGGAGTCAGGCTGTCTGTGAAAGCCATGAGCTTCTCTC
 961 CCTCTCCCACTCCTCCTCTCCTACTTTCAGATGGATTTATTCCTTTTTTAAACAATGAACATCGGAAATGAGACTGTGGG
1041 GTGTGGTTTCTCTCTCTCTTTTTTTTTTAATTTTCTTTGTTGGGTTTTTGAGCAACCTCATGTCCCCTTCCCAGGGAGCT
1121 TTTTAATTTACCTCTTAGAACTCAAGTGGATGGGAAGTAGAGCACTATGTGTCAGTATGCTTTGTTTTCTGACACGATTA
1201 CACAGCGAGGCTTTAATGCCATTTGGGTAGGTGAGCTTCTGCACTTCTGTTGTGCTGAACTGTATTTTCTTCTCTCATCT
1281 CCTCTTTGTCTTTTTCTCTTTTCCTCTCCTTCCTGCCTTCTTCTGCTGGCCTCCTTTTCTCTTTCTTTACCTTCCTTGGA
1361 TTATCCTTCCAGGTTTTCATAATAAATTTATATTTTGTAAAAGGATTTTGTTGTACCAGGTTTTGCATCCTCACTGAATC
1441 TGACTGGCTTTTATTTTCCTCTCCAAAATCAGGTTTTTGTTCTCAACATCTTTCCCCATCATGTCTAGTCACTGTTTTGG
1521 TTTTGGCACCATCAGTATCAAATGTACAAACGGTTCTTGCTAACCAACACCAGGTATATCTGATGTTCAGATGAGTTCCA
1601 ATAAAAATAATTTTTTTTTTTTTCAAAAGGTGTCTTTTTCTTGAGTGCTGGAGGGCTTCCAAGCAAGTCCAGACAGCTCT
1681 GTGTGGCCCCACACTAGTCTAGCTCTCATCTGGCCAAAGCTGTTATCTCATTTGTGTAATGGGAGTCCTTAAGGTAAATT
1761 TGGGGTCCAAACTTGGAGGGCTTTGGGGGCAAGAAAGTTGGTGTGTGAGTTCTGAGGTTGGAAATGAGTTCAGGTGTCTT
1841 CTTCCAGGGCAGCATGGTCCAGTGAGCACATGTAAGTTTGGGCAGTAGATCCTCTGAGCCTACTTTCTCTTCTACTCAGT
1921 GAGGATGCTGCTTCCTTGGCAGGTGATTGTGATGTGAAGCTTAGTAAGTCATAGACGTGCAGGTGTCTGGAGAGTCCTGA
2001 CATGCAGTTGTGGTTTCGTTTCCTTTTGGAATCTTCAAAGGCAGCGATTTTCATATTGCCTCACACCCTGGCGGGGGCGG
2081 GGGGCTCTGGGACCACTGGGGGACCTGCTAAATCCTCTTCAGTCTGAGCAGTTCAGCCATTGTCAGTTTTAGTATTGTGT
2161 CTCTGTATTTCACTTGCAGAAAGAGCTTTGCTTCTATAAAGGACTTTAAAAAGTACTCCAAAGAGATCTAGTTTTGGAGT
2241 AGAGGGGAGATGTTTTCTCAAACTTAGGGCAGTCCTGAGATGCTCAGGCAGTAGCCCTTTTCTCAGTTCCCTTTGCGGGT
2321 CTTGGTCAGATGATGCCCTCTAGACCCGTGCTGTCCAATATGTAGCCGCTAGCCATGTGCAGCTGTCAGGCCCTTGCAAC
2401 GTGGCTGGTTCGAGCTGTGATACACTGCAAGTGTAAACACAAACCAGACTTCGAAGGCTTAGTATGATAACAAAAGAAAA
2481 GGAGTGTAAAATATGTCAATAACTTTTTTATATATGTGTTGAAATATTTTGGGTATTGGGTTAAATAAAATATATTATTA
2561 AAATTCAAAAAAAAAAAAAAAAAA
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' cucuaccaccucaucGAGGUCCg 5'
                         ||||||| 
Target 5' ccttcctcctctcccCTCCAGGg 3'
 902 - 924 140.00 -12.00
2 
miRNA  3' cucuaccACCUCAU--CGAGGUCCg 5'
                 |||| ||   :|||||| 
Target 5' ccttcctTGGATTATCCTTCCAGGt 3'
 1350 - 1374 138.00 -13.20
3 
miRNA  3' cucuaccaccUCAUCGAGGUCcg 5'
                    | |:|||||||  
Target 5' ccctccccacATTGGCTCCAGca 3'
 535 - 557 133.00 -13.00
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSM5937740 3 COSMIC
COSN30147754 19 COSMIC
COSN30510579 31 COSMIC
COSN13712439 49 COSMIC
COSN31516665 52 COSMIC
COSN30190257 122 COSMIC
COSN31540350 224 COSMIC
COSN30165660 305 COSMIC
COSN24867433 687 COSMIC
COSN1716797 973 COSMIC
COSN23244693 1021 COSMIC
COSN29855008 1328 COSMIC
COSN7164051 1470 COSMIC
COSN26606569 1674 COSMIC
COSN23823357 1812 COSMIC
COSN1716798 1996 COSMIC
COSN7164052 2029 COSMIC
COSN6548123 2638 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs139814136 1 dbSNP
rs759641900 3 dbSNP
rs1323923639 4 dbSNP
rs769948222 6 dbSNP
rs778378104 10 dbSNP
rs1395752090 14 dbSNP
rs1049339239 15 dbSNP
rs761593724 16 dbSNP
rs1431176981 17 dbSNP
rs1218897425 19 dbSNP
rs1008144233 21 dbSNP
rs148367648 23 dbSNP
rs750310465 27 dbSNP
rs1207943223 34 dbSNP
rs760711752 47 dbSNP
rs141587003 49 dbSNP
rs150291345 50 dbSNP
rs997631757 52 dbSNP
rs1437823353 55 dbSNP
rs560606547 59 dbSNP
rs577381566 60 dbSNP
rs770802560 66 dbSNP
rs1347420987 67 dbSNP
rs545973703 70 dbSNP
rs1021034421 71 dbSNP
rs562871300 84 dbSNP
rs531879048 100 dbSNP
rs1000862540 102 dbSNP
rs1435362739 108 dbSNP
rs937125522 114 dbSNP
rs1312528353 116 dbSNP
rs1434746083 125 dbSNP
rs1400380881 131 dbSNP
rs1403955725 137 dbSNP
rs1406930732 138 dbSNP
rs1453568355 145 dbSNP
rs1032935286 152 dbSNP
rs11539943 159 dbSNP
rs957270517 160 dbSNP
rs1474529269 161 dbSNP
rs543844394 162 dbSNP
rs1188805142 164 dbSNP
rs911606533 165 dbSNP
rs1444175351 166 dbSNP
rs1260000311 181 dbSNP
rs943090610 183 dbSNP
rs1335480529 190 dbSNP
rs992414939 195 dbSNP
rs916923225 198 dbSNP
rs560559907 199 dbSNP
rs1801562 206 dbSNP
rs11539944 212 dbSNP
rs1232981792 214 dbSNP
rs940396941 215 dbSNP
rs1253716362 223 dbSNP
rs991748385 224 dbSNP
rs774233652 227 dbSNP
rs1196012544 233 dbSNP
rs529645178 246 dbSNP
rs899450380 247 dbSNP
rs763192745 256 dbSNP
rs1161850308 269 dbSNP
rs971624923 272 dbSNP
rs546397447 273 dbSNP
rs1195442151 276 dbSNP
rs930797138 280 dbSNP
rs1166285549 296 dbSNP
rs1473851627 314 dbSNP
rs1050631878 319 dbSNP
rs1192478259 323 dbSNP
rs1447832652 324 dbSNP
rs1453688897 329 dbSNP
rs1008989709 332 dbSNP
rs1466966926 332 dbSNP
rs889158553 332 dbSNP
rs1375996200 336 dbSNP
rs1019072885 340 dbSNP
rs3209620 342 dbSNP
rs560816305 343 dbSNP
rs1358294747 345 dbSNP
rs1267927225 346 dbSNP
rs1009594403 348 dbSNP
rs1140706 348 dbSNP
rs892468317 348 dbSNP
rs1400057576 350 dbSNP
rs1326933178 351 dbSNP
rs919003473 354 dbSNP
rs929006879 356 dbSNP
rs1394919708 361 dbSNP
rs1444975947 362 dbSNP
rs1328308785 363 dbSNP
rs181680701 375 dbSNP
rs745690278 385 dbSNP
rs1440800833 390 dbSNP
rs909474757 392 dbSNP
rs1191968524 394 dbSNP
rs1453944966 401 dbSNP
rs1327608939 404 dbSNP
rs1453275323 407 dbSNP
rs968677980 408 dbSNP
rs1227721758 409 dbSNP
rs1194771038 413 dbSNP
rs1250362335 420 dbSNP
rs1342246062 426 dbSNP
rs943605212 429 dbSNP
rs532238877 430 dbSNP
rs187088367 432 dbSNP
rs997683994 438 dbSNP
rs1328736242 440 dbSNP
rs1468033875 447 dbSNP
rs1372501187 448 dbSNP
rs1434370218 448 dbSNP
rs1395863479 457 dbSNP
rs1191604054 462 dbSNP
rs1189334136 474 dbSNP
rs1478868116 477 dbSNP
rs1042531955 481 dbSNP
rs1265382201 483 dbSNP
rs902564145 488 dbSNP
rs1034190386 489 dbSNP
rs201362675 489 dbSNP
rs1430333784 492 dbSNP
rs992530837 499 dbSNP
rs1423233778 501 dbSNP
rs1464245306 506 dbSNP
rs1000869346 510 dbSNP
rs1278863685 515 dbSNP
rs1167621402 521 dbSNP
rs917037322 533 dbSNP
rs1279276714 536 dbSNP
rs940344758 537 dbSNP
rs1395664554 548 dbSNP
rs1032318906 551 dbSNP
rs957527487 552 dbSNP
rs920818851 554 dbSNP
rs1360003741 562 dbSNP
rs930910329 579 dbSNP
rs1416015369 594 dbSNP
rs569216801 620 dbSNP
rs1023284691 621 dbSNP
rs1157717096 624 dbSNP
rs1472897188 635 dbSNP
rs191071137 641 dbSNP
rs981231288 646 dbSNP
rs181305779 651 dbSNP
rs944894521 651 dbSNP
rs919010153 655 dbSNP
rs950448137 659 dbSNP
rs1314692718 661 dbSNP
rs760173167 664 dbSNP
rs1229340284 665 dbSNP
rs1234747064 669 dbSNP
rs908906543 687 dbSNP
rs943013408 688 dbSNP
rs1428896943 696 dbSNP
rs1344794140 699 dbSNP
rs763597049 700 dbSNP
rs1262379897 702 dbSNP
rs1000126734 703 dbSNP
rs1162700649 703 dbSNP
rs1039329792 705 dbSNP
rs1183055317 706 dbSNP
rs1484701687 706 dbSNP
rs868839168 706 dbSNP
rs568386436 709 dbSNP
rs1209789204 720 dbSNP
rs1466524093 720 dbSNP
rs762328019 721 dbSNP
rs1042538773 727 dbSNP
rs1233220148 727 dbSNP
rs1322781119 727 dbSNP
rs902616487 732 dbSNP
rs1435631772 733 dbSNP
rs534164371 733 dbSNP
rs958564449 733 dbSNP
rs1054265058 743 dbSNP
rs185127088 752 dbSNP
rs1390546892 753 dbSNP
rs1477001686 767 dbSNP
rs1323567132 770 dbSNP
rs1012658698 772 dbSNP
rs1022915030 773 dbSNP
rs1457372224 785 dbSNP
rs765542857 788 dbSNP
rs1350349005 794 dbSNP
rs961785525 799 dbSNP
rs577248406 801 dbSNP
rs1423551078 812 dbSNP
rs750764433 817 dbSNP
rs1450879985 818 dbSNP
rs1209577389 830 dbSNP
rs796811191 832 dbSNP
rs1489108599 839 dbSNP
rs1267737173 848 dbSNP
rs546035367 851 dbSNP
rs1454740053 853 dbSNP
rs1275693303 866 dbSNP
rs950541626 868 dbSNP
rs951834746 874 dbSNP
rs1289977199 875 dbSNP
rs1301007014 875 dbSNP
rs1460073846 875 dbSNP
rs34280753 875 dbSNP
rs397857936 875 dbSNP
rs986395851 877 dbSNP
rs777049055 880 dbSNP
rs1431288057 886 dbSNP
rs1392828740 887 dbSNP
rs1313061161 890 dbSNP
rs1378217254 891 dbSNP
rs532042665 897 dbSNP
rs1308853657 899 dbSNP
rs1482983372 903 dbSNP
rs1275477620 909 dbSNP
rs1207320771 913 dbSNP
rs1346052030 913 dbSNP
rs913964515 914 dbSNP
rs1312538961 920 dbSNP
rs1303060197 925 dbSNP
rs1238234075 927 dbSNP
rs576186888 931 dbSNP
rs1349757135 932 dbSNP
rs542120795 936 dbSNP
rs1308137079 937 dbSNP
rs1285402016 940 dbSNP
rs1487315889 942 dbSNP
rs1411108089 943 dbSNP
rs1213318151 948 dbSNP
rs1373284928 964 dbSNP
rs377368114 966 dbSNP
rs1466928223 970 dbSNP
rs766622635 971 dbSNP
rs1157295487 986 dbSNP
rs1472562954 991 dbSNP
rs945446155 995 dbSNP
rs1044084300 1025 dbSNP
rs1483028709 1031 dbSNP
rs1201256694 1032 dbSNP
rs903846314 1036 dbSNP
rs562378742 1038 dbSNP
rs11539942 1067 dbSNP
rs529669079 1076 dbSNP
rs765644115 1091 dbSNP
rs1328460492 1094 dbSNP
rs984580832 1099 dbSNP
rs1288879686 1102 dbSNP
rs1016427323 1116 dbSNP
rs1055698938 1120 dbSNP
rs540206870 1125 dbSNP
rs1396256874 1132 dbSNP
rs1403838565 1135 dbSNP
rs964444598 1137 dbSNP
rs1158515699 1143 dbSNP
rs564047766 1145 dbSNP
rs755053034 1146 dbSNP
rs781446031 1150 dbSNP
rs1474477743 1153 dbSNP
rs1367967735 1157 dbSNP
rs933533981 1163 dbSNP
rs1024113890 1170 dbSNP
rs755425603 1170 dbSNP
rs1259890407 1172 dbSNP
rs532227286 1173 dbSNP
rs1210530120 1178 dbSNP
rs978266050 1178 dbSNP
rs993197190 1178 dbSNP
rs1027842525 1180 dbSNP
rs1354089520 1180 dbSNP
rs951744034 1181 dbSNP
rs552262852 1182 dbSNP
rs9912777 1190 dbSNP
rs1299739651 1191 dbSNP
rs1373701959 1192 dbSNP
rs1445970265 1193 dbSNP
rs1053913786 1197 dbSNP
rs1351637901 1201 dbSNP
rs531508787 1204 dbSNP
rs1390582793 1205 dbSNP
rs1163962218 1207 dbSNP
rs1236637031 1218 dbSNP
rs137942070 1221 dbSNP
rs976224878 1222 dbSNP
rs1188157931 1223 dbSNP
rs948086274 1227 dbSNP
rs1248415722 1229 dbSNP
rs1190227183 1231 dbSNP
rs1449840866 1237 dbSNP
rs1289019314 1241 dbSNP
rs1209983758 1252 dbSNP
rs914085848 1254 dbSNP
rs143515603 1259 dbSNP
rs907142502 1269 dbSNP
rs757229216 1284 dbSNP
rs1300290229 1286 dbSNP
rs1434739257 1289 dbSNP
rs1234977967 1293 dbSNP
rs925396952 1295 dbSNP
rs1324777941 1303 dbSNP
rs1407210067 1307 dbSNP
rs1394442699 1316 dbSNP
rs1167970322 1317 dbSNP
rs1481138320 1323 dbSNP
rs1178606466 1325 dbSNP
rs1392206454 1328 dbSNP
rs1236931501 1329 dbSNP
rs1455949305 1332 dbSNP
rs778763759 1340 dbSNP
rs1476914617 1352 dbSNP
rs1246109524 1353 dbSNP
rs938016671 1357 dbSNP
rs1453187885 1363 dbSNP
rs1026170182 1364 dbSNP
rs1203749110 1366 dbSNP
rs1423852885 1367 dbSNP
rs886316029 1369 dbSNP
rs1412403249 1370 dbSNP
rs1006460853 1384 dbSNP
rs1354917335 1391 dbSNP
rs1344737836 1400 dbSNP
rs894354809 1410 dbSNP
rs1016024431 1411 dbSNP
rs1464873114 1415 dbSNP
rs545747165 1417 dbSNP
rs1373158102 1418 dbSNP
rs1045656047 1420 dbSNP
rs1441523380 1420 dbSNP
rs1410479029 1423 dbSNP
rs1275581015 1425 dbSNP
rs897647327 1426 dbSNP
rs1217715908 1428 dbSNP
rs1414059334 1431 dbSNP
rs1424210484 1434 dbSNP
rs189830516 1435 dbSNP
rs1027400152 1438 dbSNP
rs1478979858 1438 dbSNP
rs951895896 1440 dbSNP
rs1253602231 1441 dbSNP
rs1318837997 1444 dbSNP
rs1029972767 1454 dbSNP
rs1198469481 1461 dbSNP
rs1007187602 1467 dbSNP
rs954346161 1471 dbSNP
rs978360793 1477 dbSNP
rs1470272652 1480 dbSNP
rs1194737742 1481 dbSNP
rs1288261507 1494 dbSNP
rs73984544 1502 dbSNP
rs1476727166 1519 dbSNP
rs936887862 1525 dbSNP
rs1187931950 1531 dbSNP
rs1419839284 1535 dbSNP
rs990019963 1537 dbSNP
rs1359911894 1542 dbSNP
rs1470814656 1547 dbSNP
rs1021240540 1548 dbSNP
rs916672064 1551 dbSNP
rs948106382 1565 dbSNP
rs1477276431 1576 dbSNP
rs966864470 1578 dbSNP
rs1168341514 1581 dbSNP
rs775140318 1594 dbSNP
rs1413537309 1601 dbSNP
rs1179573318 1603 dbSNP
rs980041371 1608 dbSNP
rs554135277 1610 dbSNP
rs1212762059 1611 dbSNP
rs1463811804 1615 dbSNP
rs1349405163 1620 dbSNP
rs929977101 1622 dbSNP
rs1434455306 1636 dbSNP
rs1271984791 1648 dbSNP
rs570896636 1651 dbSNP
rs1331786864 1653 dbSNP
rs147178851 1659 dbSNP
rs886326023 1669 dbSNP
rs1265579319 1671 dbSNP
rs556191386 1673 dbSNP
rs1286173726 1674 dbSNP
rs1006057909 1675 dbSNP
rs1037914315 1680 dbSNP
rs1319567109 1683 dbSNP
rs1457737638 1688 dbSNP
rs1346847553 1689 dbSNP
rs1162150214 1693 dbSNP
rs917906449 1697 dbSNP
rs1414141818 1723 dbSNP
rs1185064244 1728 dbSNP
rs949412332 1731 dbSNP
rs11290468 1732 dbSNP
rs139282160 1732 dbSNP
rs534955252 1732 dbSNP
rs879885865 1732 dbSNP
rs900261155 1732 dbSNP
rs897781769 1733 dbSNP
rs1221007407 1735 dbSNP
rs74917045 1744 dbSNP
rs1337328958 1745 dbSNP
rs60871066 1746 dbSNP
rs60979290 1747 dbSNP
rs1292048293 1750 dbSNP
rs531257351 1751 dbSNP
rs1030066067 1752 dbSNP
rs1450357247 1754 dbSNP
rs887511919 1756 dbSNP
rs1007735380 1758 dbSNP
rs1263258405 1762 dbSNP
rs1477328974 1765 dbSNP
rs1190968170 1766 dbSNP
rs1419790985 1767 dbSNP
rs1017393471 1781 dbSNP
rs1162402682 1789 dbSNP
rs1164887454 1793 dbSNP
rs954399858 1796 dbSNP
rs1411598482 1801 dbSNP
rs547993399 1803 dbSNP
rs4523973 1807 dbSNP
rs1031265267 1810 dbSNP
rs958491285 1816 dbSNP
rs1430656754 1824 dbSNP
rs989678585 1825 dbSNP
rs916764273 1829 dbSNP
rs1361177656 1842 dbSNP
rs1399646538 1844 dbSNP
rs969565880 1848 dbSNP
rs1203053519 1852 dbSNP
rs1341786830 1858 dbSNP
rs1357789721 1863 dbSNP
rs982201586 1866 dbSNP
rs1298830530 1869 dbSNP
rs1386167076 1882 dbSNP
rs1368150076 1895 dbSNP
rs758782633 1896 dbSNP
rs928046973 1902 dbSNP
rs776146212 1909 dbSNP
rs967371565 1914 dbSNP
rs1463148766 1924 dbSNP
rs1376289236 1925 dbSNP
rs1354933299 1931 dbSNP
rs1225969012 1939 dbSNP
rs1434276343 1940 dbSNP
rs1180161622 1945 dbSNP
rs1482768926 1949 dbSNP
rs751229769 1950 dbSNP
rs979583626 1958 dbSNP
rs1482374114 1960 dbSNP
rs1254048755 1965 dbSNP
rs1232231248 1966 dbSNP
rs1047012712 1973 dbSNP
rs1312741165 1974 dbSNP
rs1285107485 1976 dbSNP
rs1226099848 1988 dbSNP
rs1487641729 1991 dbSNP
rs1288358138 1992 dbSNP
rs1392804118 1993 dbSNP
rs1214042123 1994 dbSNP
rs555817428 1994 dbSNP
rs1259233242 1998 dbSNP
rs1442620571 2003 dbSNP
rs1186647677 2011 dbSNP
rs761348712 2014 dbSNP
rs1302687391 2018 dbSNP
rs1466850296 2030 dbSNP
rs907818321 2032 dbSNP
rs1409033832 2038 dbSNP
rs1157576103 2041 dbSNP
rs1235521807 2048 dbSNP
rs941911790 2061 dbSNP
rs1037609699 2070 dbSNP
rs1422332394 2071 dbSNP
rs72813041 2090 dbSNP
rs1159121079 2091 dbSNP
rs1199729950 2092 dbSNP
rs1381023224 2093 dbSNP
rs996018947 2098 dbSNP
rs182443694 2112 dbSNP
rs1328342700 2117 dbSNP
rs1279654445 2128 dbSNP
rs1240536740 2129 dbSNP
rs890175086 2143 dbSNP
rs1156893047 2150 dbSNP
rs999192457 2154 dbSNP
rs1397038022 2165 dbSNP
rs949380992 2167 dbSNP
rs1030648348 2168 dbSNP
rs957715288 2175 dbSNP
rs1160409822 2178 dbSNP
rs1011599142 2182 dbSNP
rs1188521667 2183 dbSNP
rs539893125 2184 dbSNP
rs1023886956 2192 dbSNP
rs188705695 2193 dbSNP
rs547317552 2194 dbSNP
rs545938265 2195 dbSNP
rs928058124 2200 dbSNP
rs763314280 2206 dbSNP
rs868392127 2209 dbSNP
rs982758567 2213 dbSNP
rs1237388190 2219 dbSNP
rs1165731987 2220 dbSNP
rs997148724 2222 dbSNP
rs1281824776 2223 dbSNP
rs1020633657 2237 dbSNP
rs1390112399 2247 dbSNP
rs909901898 2250 dbSNP
rs941350079 2251 dbSNP
rs140406244 2253 dbSNP
rs531570859 2256 dbSNP
rs548343563 2259 dbSNP
rs1166526819 2267 dbSNP
rs1439289970 2277 dbSNP
rs766669211 2278 dbSNP
rs770545109 2285 dbSNP
rs1195258172 2292 dbSNP
rs561882129 2298 dbSNP
rs931810789 2305 dbSNP
rs751758609 2306 dbSNP
rs1176910811 2307 dbSNP
rs1222552596 2308 dbSNP
rs890227605 2316 dbSNP
rs1379440953 2317 dbSNP
rs970790508 2318 dbSNP
rs778686442 2326 dbSNP
rs1340514831 2329 dbSNP
rs368795628 2331 dbSNP
rs1272224512 2335 dbSNP
rs1231747921 2340 dbSNP
rs935098261 2345 dbSNP
rs972685242 2350 dbSNP
rs1406814693 2358 dbSNP
rs1052167489 2364 dbSNP
rs755284062 2373 dbSNP
rs1010563981 2380 dbSNP
rs1368751114 2381 dbSNP
rs527574896 2383 dbSNP
rs1400541237 2385 dbSNP
rs905407180 2389 dbSNP
rs952771949 2391 dbSNP
rs1412039452 2398 dbSNP
rs1003686785 2401 dbSNP
rs1199594883 2403 dbSNP
rs1332435700 2404 dbSNP
rs1376886675 2405 dbSNP
rs1204006195 2406 dbSNP
rs1445209867 2407 dbSNP
rs5819984 2416 dbSNP
rs1305002183 2421 dbSNP
rs371299240 2425 dbSNP
rs985093773 2427 dbSNP
rs745503996 2428 dbSNP
rs1035123561 2431 dbSNP
rs1225496279 2437 dbSNP
rs192408991 2439 dbSNP
rs1348725833 2451 dbSNP
rs767892247 2462 dbSNP
rs1287735691 2466 dbSNP
rs1443248823 2468 dbSNP
rs1356470070 2469 dbSNP
rs1330683895 2480 dbSNP
rs1409320853 2483 dbSNP
rs1232107941 2488 dbSNP
rs570826519 2489 dbSNP
rs142784276 2490 dbSNP
rs1177083351 2491 dbSNP
rs549878326 2498 dbSNP
rs1481339047 2499 dbSNP
rs1409167318 2512 dbSNP
rs570711620 2520 dbSNP
rs975404999 2521 dbSNP
rs921847187 2522 dbSNP
rs1234227952 2526 dbSNP
rs931861673 2533 dbSNP
rs1038892637 2537 dbSNP
rs1264084947 2538 dbSNP
rs987314737 2543 dbSNP
rs1327654796 2545 dbSNP
rs373431056 2547 dbSNP
rs1267637404 2550 dbSNP
rs1224374202 2559 dbSNP
rs1375883024 2560 dbSNP
rs1282627874 2562 dbSNP
rs933072706 2566 dbSNP
rs1456440284 2575 dbSNP
rs911752361 2578 dbSNP
rs935150483 2584 dbSNP
rs1052649370 2587 dbSNP
rs1470928723 2590 dbSNP
rs370748285 2593 dbSNP
rs752803513 2595 dbSNP
rs893523371 2601 dbSNP
rs1179773242 2603 dbSNP
rs946379860 2603 dbSNP
rs1044714674 2604 dbSNP
rs1433793555 2606 dbSNP
rs1244169800 2608 dbSNP
rs1185764359 2616 dbSNP
rs1463963406 2619 dbSNP
rs1198214142 2624 dbSNP
rs756319964 2624 dbSNP
rs1318824584 2625 dbSNP
rs1000577801 2626 dbSNP
rs1054440710 2633 dbSNP
rs905457118 2640 dbSNP
rs1451765256 2643 dbSNP
rs778905039 2646 dbSNP
rs1454349002 2649 dbSNP
rs1012331197 2655 dbSNP
rs1025117290 2660 dbSNP
rs1431317658 2662 dbSNP
rs1346463345 2664 dbSNP
rs1290663209 2673 dbSNP
rs1035214995 2674 dbSNP
rs887313582 2675 dbSNP
rs1004328502 2676 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions C8166
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 GSM1462572. RNA binding protein: AGO2. Condition:C8166 NL4-3 ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' cucuaccaccucaucGAGGUCCg 5'
                         ||||||| 
Target 5' ----ccuccucucccCUCCAGG- 3'
 		1 - 18
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 GSM1462572
Method / RBP PAR-CLIP / AGO2
Cell line / Condition C8166 / C8166 NL4-3
Location of target site ENST00000261712.3 | 3UTR | CCUCCUCUCCCCUCCAGG
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
THCA 0.182 0.41 0.400 0.3 4 Click to see details
THCA 0.182 0.41 0.400 0.3 4 Click to see details
THCA 0.182 0.41 0.400 0.3 4 Click to see details
57 hsa-miR-4254 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT061595 BTG2 BTG anti-proliferation factor 2 2 4
MIRT306302 ABCC5 ATP binding cassette subfamily C member 5 2 2
MIRT353697 ACTR2 ARP2 actin related protein 2 homolog 2 2
MIRT442351 RAB6B RAB6B, member RAS oncogene family 2 2
MIRT448535 RIMS4 regulating synaptic membrane exocytosis 4 2 2
MIRT449881 CYP3A5 cytochrome P450 family 3 subfamily A member 5 2 2
MIRT457644 ZNF69 zinc finger protein 69 2 2
MIRT458620 TRIM72 tripartite motif containing 72 2 2
MIRT470963 PKM pyruvate kinase, muscle 2 2
MIRT476285 GMFB glia maturation factor beta 2 10
MIRT477615 EFNA3 ephrin A3 2 2
MIRT482761 TMEM126B transmembrane protein 126B 2 2
MIRT492535 PSMD11 proteasome 26S subunit, non-ATPase 11 2 2
MIRT502995 CCDC71L coiled-coil domain containing 71 like 2 8
MIRT508467 HOXB6 homeobox B6 2 4
MIRT520190 WBP2 WW domain binding protein 2 2 2
MIRT525117 PRKD2 protein kinase D2 2 2
MIRT525773 SOD2 superoxide dismutase 2 2 2
MIRT526411 TFAM transcription factor A, mitochondrial 2 2
MIRT528152 AGTPBP1 ATP/GTP binding protein 1 2 2
MIRT534111 SOGA3 SOGA family member 3 2 2
MIRT538026 DNAJC10 DnaJ heat shock protein family (Hsp40) member C10 2 2
MIRT539288 ANGEL2 angel homolog 2 2 2
MIRT541103 RAF1 Raf-1 proto-oncogene, serine/threonine kinase 2 2
MIRT550999 SUOX sulfite oxidase 2 2
MIRT562165 HOXA13 homeobox A13 2 2
MIRT570122 CACNG8 calcium voltage-gated channel auxiliary subunit gamma 8 2 2
MIRT571104 DENND4B DENN domain containing 4B 2 2
MIRT574099 VASN vasorin 2 2
MIRT611153 ZNF486 zinc finger protein 486 2 2
MIRT612252 STX1B syntaxin 1B 2 4
MIRT614808 RIOK3 RIO kinase 3 2 2
MIRT622153 SORBS2 sorbin and SH3 domain containing 2 2 2
MIRT624286 CRCP CGRP receptor component 2 2
MIRT624875 ABCC12 ATP binding cassette subfamily C member 12 2 2
MIRT627479 STRN striatin 2 2
MIRT641273 AMDHD2 amidohydrolase domain containing 2 2 2
MIRT645622 TSPAN6 tetraspanin 6 2 2
MIRT650226 SIGLEC9 sialic acid binding Ig like lectin 9 2 2
MIRT657507 HBEGF heparin binding EGF like growth factor 2 2
MIRT660811 AHCY adenosylhomocysteinase 2 2
MIRT667439 METTL14 methyltransferase like 14 2 2
MIRT693744 ACACA acetyl-CoA carboxylase alpha 2 2
MIRT697852 UBE2Z ubiquitin conjugating enzyme E2 Z 2 2
MIRT698719 SUMO2 small ubiquitin-like modifier 2 2 2
MIRT699980 RREB1 ras responsive element binding protein 1 2 2
MIRT700689 POLR3D RNA polymerase III subunit D 2 2
MIRT703267 GNL3L G protein nucleolar 3 like 2 2
MIRT703787 FAM102B family with sequence similarity 102 member B 2 2
MIRT711277 SDR9C7 short chain dehydrogenase/reductase family 9C member 7 2 2
MIRT711863 TRAF2 TNF receptor associated factor 2 2 2
MIRT712451 KHNYN KH and NYN domain containing 2 2
MIRT714449 UBXN2A UBX domain protein 2A 2 2
MIRT718846 SNX20 sorting nexin 20 2 2
MIRT721333 IFNAR2 interferon alpha and beta receptor subunit 2 2 2
MIRT723315 PRKCH protein kinase C eta 2 2
MIRT736659 CYP2B6 cytochrome P450 family 2 subfamily B member 6 1 0
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-4254 Gefitinib 123631 NSC715055 approved sensitive cell line (PC9)
hsa-miR-4254 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-4254 Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)
hsa-miR-4254 Sunitinib 5329102 NSC750690 approved sensitive tissue
hsa-miR-4254 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-4254 Paclitaxel/Docetaxel/Vinorelbine/Doxorubicin/Etoposide resistant cell line (Bads-200)
hsa-miR-4254 Cisplatin 5460033 NSC119875 approved resistant cell line (OVSAHO)

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