miRTarBase - #MIRT479627


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pre-miRNA Information
pre-miRNA hsa-mir-4323   
Genomic Coordinates chr19: 42133445 - 42133513
Description Homo sapiens miR-4323 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4323
Sequence 42| CAGCCCCACAGCCUCAGA |59
Evidence Experimental
Experiments SOLiD
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs549311114 1 dbSNP
rs896027609 6 dbSNP
rs1057502968 11 dbSNP
rs773276005 11 dbSNP
rs1454618841 12 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol CDC25A   
Synonyms CDC25A2
Description cell division cycle 25A
Transcript NM_001789   
Other Transcripts NM_201567   
Expression
Putative miRNA Targets on CDC25A
3'UTR of CDC25A
(miRNA target sites are highlighted)		 
>CDC25A|NM_001789|3'UTR
   1 GGGCGGCAGGACCAGCCAGCAGCAGCCCAAGCTTCCCTCCATCCCCCTTTACCCTCTTTGCTGCAGAGAAACTTAAGCAA
  81 AGGGGACAGCTGTGTGACATTTGGAGAGGGGGCCTGGGACTTCCATGCCTTAAACCTACCTCCCACACTCCCAAGGTTGG
 161 AGCCCAGGGCATCTTGCTGGCTACGCCTCTTCTGTCCCTGTTAGACGTCCTCCGTCCATATCAGAACTGTGCCACAATGC
 241 AGTTCTGAGCACCGTGTCAAGCTGCTCTGAGCCACAGTGGGATGAACCAGCCGGGGCCTTATCGGGCTCCAGCCATCTCA
 321 TGAGGGGAGAGGAGACGGAGGGGAGTAGAGAAGTTACACAGAAATGCTGCTGGCCAAATAGCAAAGACAACCTGGGAAGG
 401 AAAGGTCTTTGTGGGATAATCCATATGTTTAATTTATTCAACTTCATCAATCACTTTATTTTATTTTTTTTTCTAACTCC
 481 TGGAGACTTATTTTACTGCTTCATTAGGTTGAAATACTGCCATTCTAGGTAGGGTTTTATTATCCCAGGGACTACCTCGG
 561 CTTTTAATTTAAAAAAAAAAAAGAAGTGGGTAAGAAAATGCAAACCTGTTATAAGTTATCGGACAGAAAGCTAGGTGCTC
 641 TGTCACCCCCAGGAGGCGCTGTGGTACTGGGGCTGCTGCTATTTAAGCCAAGAACTGAGGTCCTGGTGAGAGCGTTGGAC
 721 CCAGGCTTGGCTGCCTGACATAAGCTAAATCTCCCAGACCCACCACTGGCTACCGATATCTATTTGGTGGGAGGTGTGGC
 801 CCTGTTCTTCCTCACCCCAGTTCCATGACATTGGCTGGTATAGGAGCCACAGTCAGGAAAGCACTTGAGGCAGCATCTGT
 881 TGGGCCACCCCCGGCTCAGTGCTGGAATGTTGCAGTGTAGGTTTCCCAGGGAAGGGGGGTGGGGGTAGGTGGGCTCCACA
 961 GGATGGGGGAGGAGCATGTCCACTGAGTATCTTCCTTATGTTGCTGTGATATTGATAGCTTTTATTTTCTAATTTTTAAA
1041 AAATGGTCATATTATGAGTCAAAGAGTATCAAATCAGTGTTGGATGGACCACCCAAGGGTGAGGAGAGGGGCTGGAAGCC
1121 CTGGGCATTAGGAGAAGGGAGTGGGTGCTGGCATGGACATGACTGGATAGAATTTTCTCAGGAGGGAGCTTGGTGGATTT
1201 TGAAGGTAAAACTTTCTGGGTTTATCATGTTTTAATTTTAGAGACAGGGAGTGATGAATCATCACCGGTTGTCCCCTTAT
1281 CTAACTCCATAAAAGTGGGAATTTCAAAAGAACACCTCATCCAAGGAGCTGGGGCAGACTTCATTGATTCTAGAGAGACC
1361 TGTTTCAGTGCCTACTCATCCCTGCCCTCTGGTGCCAGCCTCCTTACCATCACGGCTTCACTGAGGTGTAGGTGGGTTTT
1441 TCTTAAACAGGAGACAGTCTCTCCCCTCTTACCTCAACTTCTTGGGGTGGGAATCAGTGATACTGGAGATGGCTAGTTGC
1521 TGTGTTACGGGTTTGAGTTACATTTGGCTATAAAACAATCTTGTTGGGAAAAATGTGGGGGAGAGGACTTCTTCCTACAC
1601 GCGCATTGAGACAGATTCCAACTGGTTAATGATATTGTTTGTAAGAAAGAGATTCTGTTGGTTGACTGCCTAAAGAGAAA
1681 GGTGGGATGGCCTTCAGATTATACCAGCTTAGCTAGCATTACTAACCAACTGTTGGAAGCTCTGAAAATAAAAGATCTTG
1761 AACCCATAAAAAAAAAAA
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' agACUCCGACACCCCGAc 5'
            || ||:  ||||||| 
Target 5' gcTGTGGTACTGGGGCTg 3'
 658 - 675 152.00 -22.90
2 
miRNA  3' agACUCCGACACCCCGAc 5'
            |||||  | |||||| 
Target 5' ggTGAGG-AGAGGGGCTg 3'
 1098 - 1114 127.00 -21.60
3 
miRNA  3' agacUCCGACACCCCGac 5'
              |||   ||||||  
Target 5' tccaAGGAGCTGGGGCag 3'
 1320 - 1337 126.00 -13.90
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN26969964 43 COSMIC
COSN26969962 73 COSMIC
COSN30472403 83 COSMIC
COSN31531242 167 COSMIC
COSN31589040 184 COSMIC
COSN28676872 266 COSMIC
COSN31547405 353 COSMIC
COSN23991287 359 COSMIC
COSN31543954 463 COSMIC
COSN20937139 570 COSMIC
COSN26642908 634 COSMIC
COSN26645174 652 COSMIC
COSN31543968 721 COSMIC
COSN31589037 770 COSMIC
COSN30176998 877 COSMIC
COSN31540639 893 COSMIC
COSN7699618 969 COSMIC
COSN26678754 1126 COSMIC
COSN31584989 1237 COSMIC
COSN31551573 1267 COSMIC
COSN22754222 1287 COSMIC
COSN31530793 1398 COSMIC
COSN24826517 1600 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs746219615 3 dbSNP
rs372516294 4 dbSNP
rs762990006 5 dbSNP
rs1203504897 8 dbSNP
rs960616694 9 dbSNP
rs1368874758 10 dbSNP
rs749830055 11 dbSNP
rs1433327647 17 dbSNP
rs559315178 23 dbSNP
rs777662596 29 dbSNP
rs756196630 35 dbSNP
rs1375954845 36 dbSNP
rs1175421823 37 dbSNP
rs1399725379 38 dbSNP
rs369158657 43 dbSNP
rs767717332 46 dbSNP
rs1364744714 47 dbSNP
rs774254706 48 dbSNP
rs755244465 50 dbSNP
rs1042487 60 dbSNP
rs1014727122 65 dbSNP
rs1005161725 68 dbSNP
rs1361884929 69 dbSNP
rs1246263035 87 dbSNP
rs1310769900 110 dbSNP
rs887847951 112 dbSNP
rs1293443975 113 dbSNP
rs1351264693 118 dbSNP
rs1227952399 120 dbSNP
rs1049639131 129 dbSNP
rs773473242 135 dbSNP
rs1180036837 142 dbSNP
rs939906056 148 dbSNP
rs1407960979 152 dbSNP
rs912491066 153 dbSNP
rs541295691 154 dbSNP
rs1378748710 157 dbSNP
rs1419292077 160 dbSNP
rs1160371282 161 dbSNP
rs1303253699 162 dbSNP
rs1425942371 167 dbSNP
rs777751002 170 dbSNP
rs1347303306 177 dbSNP
rs1366355371 184 dbSNP
rs933325273 187 dbSNP
rs1040401085 199 dbSNP
rs1409228505 202 dbSNP
rs921962958 206 dbSNP
rs3731560 207 dbSNP
rs558137527 210 dbSNP
rs1223333103 213 dbSNP
rs1238973754 214 dbSNP
rs758609584 214 dbSNP
rs546227352 217 dbSNP
rs913519771 218 dbSNP
rs1207946262 229 dbSNP
rs1255304312 232 dbSNP
rs1461691956 237 dbSNP
rs1205690253 250 dbSNP
rs750909187 251 dbSNP
rs1053288911 252 dbSNP
rs936190962 253 dbSNP
rs186188935 254 dbSNP
rs979563153 255 dbSNP
rs557425772 260 dbSNP
rs1410626173 262 dbSNP
rs17464 266 dbSNP
rs1176004602 276 dbSNP
rs1226292975 280 dbSNP
rs978269303 288 dbSNP
rs966928571 292 dbSNP
rs762218762 293 dbSNP
rs1441046081 297 dbSNP
rs1025205252 298 dbSNP
rs1349808853 300 dbSNP
rs1014281345 303 dbSNP
rs1406685267 304 dbSNP
rs1282360306 314 dbSNP
rs991796050 315 dbSNP
rs1205466574 324 dbSNP
rs960605306 327 dbSNP
rs1292407399 331 dbSNP
rs183704983 332 dbSNP
rs1205527945 335 dbSNP
rs553307582 336 dbSNP
rs898255797 337 dbSNP
rs1036794665 343 dbSNP
rs1430424911 349 dbSNP
rs1481740238 351 dbSNP
rs879943370 352 dbSNP
rs1420845998 357 dbSNP
rs534961535 361 dbSNP
rs951941275 364 dbSNP
rs1027508088 367 dbSNP
rs867904545 370 dbSNP
rs747577309 371 dbSNP
rs1433844546 372 dbSNP
rs1302371723 373 dbSNP
rs900595784 395 dbSNP
rs1345844027 397 dbSNP
rs1225273937 399 dbSNP
rs890988680 401 dbSNP
rs1338849906 405 dbSNP
rs1275169121 411 dbSNP
rs1411689547 411 dbSNP
rs1051015451 422 dbSNP
rs932601628 423 dbSNP
rs1200847144 427 dbSNP
rs1481690374 443 dbSNP
rs544918825 450 dbSNP
rs570815730 452 dbSNP
rs551716955 457 dbSNP
rs1263045094 458 dbSNP
rs1476017179 464 dbSNP
rs1053809050 468 dbSNP
rs1168053190 468 dbSNP
rs1403251177 470 dbSNP
rs1162473417 472 dbSNP
rs925378399 473 dbSNP
rs978193982 473 dbSNP
rs1296083631 483 dbSNP
rs1325833636 495 dbSNP
rs112950564 498 dbSNP
rs1431371396 515 dbSNP
rs1209270089 521 dbSNP
rs966854622 525 dbSNP
rs1245532639 526 dbSNP
rs1292709338 531 dbSNP
rs1362076575 532 dbSNP
rs775824485 542 dbSNP
rs1025598018 544 dbSNP
rs1283994601 547 dbSNP
rs1206596065 554 dbSNP
rs3731562 558 dbSNP
rs959891016 559 dbSNP
rs1033315471 566 dbSNP
rs1263504715 568 dbSNP
rs1225316629 569 dbSNP
rs569576821 570 dbSNP
rs1195674032 571 dbSNP
rs754285459 580 dbSNP
rs113563213 583 dbSNP
rs1182633589 583 dbSNP
rs1385521870 583 dbSNP
rs936280007 583 dbSNP
rs995145614 586 dbSNP
rs1300020347 587 dbSNP
rs1320137044 587 dbSNP
rs1338795603 590 dbSNP
rs1382244376 595 dbSNP
rs1315779019 606 dbSNP
rs1363646923 608 dbSNP
rs962411709 609 dbSNP
rs1238245939 611 dbSNP
rs761004703 612 dbSNP
rs1279345276 614 dbSNP
rs1015285726 615 dbSNP
rs548250731 619 dbSNP
rs1318215252 620 dbSNP
rs890961796 620 dbSNP
rs529764899 621 dbSNP
rs1202540263 624 dbSNP
rs745354537 625 dbSNP
rs1044574962 634 dbSNP
rs947774560 638 dbSNP
rs1210951892 641 dbSNP
rs1179142393 642 dbSNP
rs916367253 642 dbSNP
rs559469193 644 dbSNP
rs996742392 646 dbSNP
rs541229377 650 dbSNP
rs1469205308 651 dbSNP
rs750636695 657 dbSNP
rs1408309985 658 dbSNP
rs1444862851 668 dbSNP
rs1039011918 671 dbSNP
rs532407675 672 dbSNP
rs936639006 673 dbSNP
rs1273421557 679 dbSNP
rs925301372 680 dbSNP
rs369438569 681 dbSNP
rs878952722 690 dbSNP
rs778772639 706 dbSNP
rs574374517 711 dbSNP
rs756972101 713 dbSNP
rs1249331492 714 dbSNP
rs959619837 720 dbSNP
rs926885500 721 dbSNP
rs1426941745 725 dbSNP
rs1480074161 730 dbSNP
rs1177002953 734 dbSNP
rs3731563 740 dbSNP
rs1186971938 743 dbSNP
rs1464588647 747 dbSNP
rs1263565707 751 dbSNP
rs1297652177 753 dbSNP
rs3731564 754 dbSNP
rs1393348779 762 dbSNP
rs974607680 765 dbSNP
rs964786144 769 dbSNP
rs1322063318 770 dbSNP
rs559117113 774 dbSNP
rs759213609 775 dbSNP
rs557110736 776 dbSNP
rs1285690475 777 dbSNP
rs891763157 778 dbSNP
rs370933921 779 dbSNP
rs1000818330 782 dbSNP
rs997103478 787 dbSNP
rs540864965 791 dbSNP
rs1054359833 795 dbSNP
rs1044537133 799 dbSNP
rs948930704 803 dbSNP
rs894884589 811 dbSNP
rs1200103926 815 dbSNP
rs1271014293 816 dbSNP
rs1426641343 817 dbSNP
rs1433950537 818 dbSNP
rs1383012396 825 dbSNP
rs1373713430 827 dbSNP
rs1463725373 829 dbSNP
rs1337824997 831 dbSNP
rs1365365511 834 dbSNP
rs1056110197 837 dbSNP
rs1302069098 839 dbSNP
rs553106895 848 dbSNP
rs143237021 849 dbSNP
rs1382139691 856 dbSNP
rs907490230 862 dbSNP
rs1326447315 864 dbSNP
rs1229187557 865 dbSNP
rs983145865 870 dbSNP
rs1289093022 873 dbSNP
rs1358247695 886 dbSNP
rs1223013967 887 dbSNP
rs930547157 888 dbSNP
rs1400696291 890 dbSNP
rs573241617 892 dbSNP
rs1262533659 893 dbSNP
rs1462932931 893 dbSNP
rs1182010923 898 dbSNP
rs1384887083 900 dbSNP
rs974556912 904 dbSNP
rs1425509860 905 dbSNP
rs1165923315 909 dbSNP
rs1453695343 915 dbSNP
rs570752950 917 dbSNP
rs1289917058 921 dbSNP
rs1392147098 928 dbSNP
rs964569044 931 dbSNP
rs1449117802 933 dbSNP
rs371942651 934 dbSNP
rs1018803185 935 dbSNP
rs1246253114 936 dbSNP
rs1314851712 940 dbSNP
rs1316897547 940 dbSNP
rs1189372094 943 dbSNP
rs1215006539 944 dbSNP
rs945406842 945 dbSNP
rs1486787271 946 dbSNP
rs918005807 946 dbSNP
rs1242591561 955 dbSNP
rs1255205989 956 dbSNP
rs1196365230 959 dbSNP
rs1056611693 965 dbSNP
rs938158832 970 dbSNP
rs1418824724 971 dbSNP
rs368191551 973 dbSNP
rs1366108226 974 dbSNP
rs1468688995 980 dbSNP
rs1217255064 982 dbSNP
rs865861450 983 dbSNP
rs558800977 994 dbSNP
rs1271894413 996 dbSNP
rs1304171821 998 dbSNP
rs375481614 998 dbSNP
rs987530414 999 dbSNP
rs926846164 1012 dbSNP
rs1242153569 1018 dbSNP
rs569596896 1038 dbSNP
rs1339137281 1043 dbSNP
rs773155436 1055 dbSNP
rs1333897848 1056 dbSNP
rs962935770 1063 dbSNP
rs1032058239 1065 dbSNP
rs185872086 1069 dbSNP
rs767421001 1079 dbSNP
rs1178198483 1090 dbSNP
rs1306277931 1098 dbSNP
rs982428746 1102 dbSNP
rs904771574 1103 dbSNP
rs1176265990 1109 dbSNP
rs758533060 1114 dbSNP
rs955129662 1118 dbSNP
rs1469829113 1119 dbSNP
rs1029809439 1120 dbSNP
rs527790569 1135 dbSNP
rs1352447656 1141 dbSNP
rs3731565 1145 dbSNP
rs765237683 1148 dbSNP
rs1298598454 1153 dbSNP
rs1352025235 1156 dbSNP
rs1403054890 1159 dbSNP
rs1282520801 1167 dbSNP
rs1324148182 1170 dbSNP
rs1221066816 1206 dbSNP
rs1013133748 1208 dbSNP
rs1471923062 1213 dbSNP
rs895963015 1215 dbSNP
rs1057230148 1216 dbSNP
rs1000072837 1234 dbSNP
rs903107201 1237 dbSNP
rs1003669411 1249 dbSNP
rs886223356 1250 dbSNP
rs1047846409 1251 dbSNP
rs1192481223 1255 dbSNP
rs1416764074 1255 dbSNP
rs1182205228 1256 dbSNP
rs1484006417 1257 dbSNP
rs116119378 1260 dbSNP
rs1170633810 1261 dbSNP
rs1372216828 1261 dbSNP
rs1203815046 1262 dbSNP
rs1422564326 1263 dbSNP
rs769202800 1266 dbSNP
rs181081390 1267 dbSNP
rs1438520723 1275 dbSNP
rs1268500234 1279 dbSNP
rs943285468 1280 dbSNP
rs1056936819 1287 dbSNP
rs911688627 1301 dbSNP
rs938149540 1305 dbSNP
rs987312938 1313 dbSNP
rs1357511569 1319 dbSNP
rs532342450 1320 dbSNP
rs1240136264 1322 dbSNP
rs905330670 1324 dbSNP
rs1491001784 1328 dbSNP
rs565105638 1329 dbSNP
rs1239872108 1334 dbSNP
rs1287080964 1336 dbSNP
rs1038511488 1339 dbSNP
rs753961712 1343 dbSNP
rs1442383723 1349 dbSNP
rs561460755 1352 dbSNP
rs754204789 1355 dbSNP
rs1407030866 1358 dbSNP
rs1316076936 1360 dbSNP
rs1325577891 1374 dbSNP
rs1431624900 1380 dbSNP
rs763308934 1383 dbSNP
rs764555189 1383 dbSNP
rs1403840189 1385 dbSNP
rs1380926810 1386 dbSNP
rs372188111 1398 dbSNP
rs1022938404 1402 dbSNP
rs983020636 1405 dbSNP
rs1358837556 1406 dbSNP
rs1158942085 1407 dbSNP
rs1473410820 1409 dbSNP
rs1284231183 1413 dbSNP
rs1013080400 1414 dbSNP
rs1181436887 1428 dbSNP
rs531524136 1431 dbSNP
rs563673171 1436 dbSNP
rs541864650 1447 dbSNP
rs1459705440 1454 dbSNP
rs574838246 1456 dbSNP
rs1196070528 1464 dbSNP
rs1385661457 1472 dbSNP
rs867885902 1485 dbSNP
rs1473634081 1491 dbSNP
rs1035812127 1493 dbSNP
rs1156560662 1496 dbSNP
rs75864198 1497 dbSNP
rs1407226704 1498 dbSNP
rs1401203630 1500 dbSNP
rs150274172 1503 dbSNP
rs1452204803 1508 dbSNP
rs1337577614 1510 dbSNP
rs886168669 1513 dbSNP
rs554310421 1521 dbSNP
rs879786465 1528 dbSNP
rs1279326926 1529 dbSNP
rs140929323 1529 dbSNP
rs898808826 1531 dbSNP
rs1230706863 1541 dbSNP
rs1269493222 1541 dbSNP
rs975563970 1546 dbSNP
rs1202675551 1556 dbSNP
rs1256467938 1558 dbSNP
rs1443764638 1560 dbSNP
rs963829464 1564 dbSNP
rs1032809325 1567 dbSNP
rs978604601 1568 dbSNP
rs1266606448 1569 dbSNP
rs1161206948 1571 dbSNP
rs967263433 1573 dbSNP
rs577005004 1575 dbSNP
rs1014199516 1576 dbSNP
rs775855724 1577 dbSNP
rs943236066 1580 dbSNP
rs1389890477 1582 dbSNP
rs776193357 1583 dbSNP
rs911848818 1585 dbSNP
rs1412249172 1586 dbSNP
rs575609624 1592 dbSNP
rs934537558 1600 dbSNP
rs1222421663 1601 dbSNP
rs558740232 1602 dbSNP
rs537719084 1603 dbSNP
rs1346767378 1607 dbSNP
rs576665303 1612 dbSNP
rs1272035011 1621 dbSNP
rs1483231055 1633 dbSNP
rs772699840 1634 dbSNP
rs770103969 1635 dbSNP
rs1266749489 1638 dbSNP
rs1199761387 1640 dbSNP
rs1459007064 1640 dbSNP
rs1379379223 1643 dbSNP
rs915876511 1647 dbSNP
rs1167506793 1649 dbSNP
rs1386245025 1651 dbSNP
rs1397698281 1651 dbSNP
rs1038481606 1653 dbSNP
rs1301652812 1657 dbSNP
rs1345499792 1662 dbSNP
rs1470275347 1666 dbSNP
rs1427109582 1672 dbSNP
rs756639208 1676 dbSNP
rs941516679 1683 dbSNP
rs991484149 1690 dbSNP
rs1224811667 1694 dbSNP
rs1269184370 1704 dbSNP
rs960277772 1705 dbSNP
rs1035926161 1708 dbSNP
rs1207109654 1713 dbSNP
rs537847911 1716 dbSNP
rs1490168670 1718 dbSNP
rs535862051 1729 dbSNP
rs951550511 1740 dbSNP
rs1242182420 1761 dbSNP
rs1190169299 1765 dbSNP
rs1463248063 1767 dbSNP
rs1426771704 1771 dbSNP
rs565724637 1777 dbSNP
rs1246612070 1790 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 GSM1462574. RNA binding protein: AGO2. Condition:TZM-bl ami BaL ...

- 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' agACUCCGACACCCCGAc 5'
            || ||:  ||||||| 
Target 5' gcUGUGGUACUGGGGCUg 3'
 		2 - 19
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 GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000302506.3 | 3UTR | CGCUGUGGUACUGGGGCUGCUGCUAUUUAAGCCAAG
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
64 hsa-miR-4323 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT052834 NOL11 nucleolar protein 11 1 1
MIRT082489 PPP1R37 protein phosphatase 1 regulatory subunit 37 2 2
MIRT117166 PER1 period circadian clock 1 2 2
MIRT157951 TMEM184B transmembrane protein 184B 2 2
MIRT286013 TVP23B trans-golgi network vesicle protein 23 homolog B 2 2
MIRT310457 REST RE1 silencing transcription factor 2 2
MIRT338984 CPSF6 cleavage and polyadenylation specific factor 6 2 2
MIRT404223 RPL7L1 ribosomal protein L7 like 1 2 2
MIRT451439 TJP3 tight junction protein 3 2 2
MIRT463541 ZBTB7A zinc finger and BTB domain containing 7A 2 2
MIRT466981 STARD7 StAR related lipid transfer domain containing 7 2 4
MIRT479627 CDC25A cell division cycle 25A 2 2
MIRT487983 SEC14L3 SEC14 like lipid binding 3 2 4
MIRT488661 ELAVL3 ELAV like RNA binding protein 3 2 2
MIRT489925 RTKN rhotekin 2 2
MIRT490209 PKNOX2 PBX/knotted 1 homeobox 2 2 2
MIRT494896 ZNF662 zinc finger protein 662 2 2
MIRT495380 RELT RELT, TNF receptor 2 2
MIRT495549 ANKRD65 ankyrin repeat domain 65 2 2
MIRT499104 AGRN agrin 2 2
MIRT500036 ABCF2 ATP binding cassette subfamily F member 2 2 8
MIRT501135 SLC2A1 solute carrier family 2 member 1 2 2
MIRT505573 SMC1A structural maintenance of chromosomes 1A 2 6
MIRT508164 ABCC5 ATP binding cassette subfamily C member 5 2 8
MIRT512383 PHB2 prohibitin 2 2 2
MIRT512719 YWHAZ tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta 2 2
MIRT520904 STMN1 stathmin 1 2 2
MIRT526361 TIMMDC1 translocase of inner mitochondrial membrane domain containing 1 2 2
MIRT526847 GALNT11 polypeptide N-acetylgalactosaminyltransferase 11 2 2
MIRT526945 CMSS1 cms1 ribosomal small subunit homolog (yeast) 2 4
MIRT527028 PABPN1L poly(A) binding protein nuclear 1 like, cytoplasmic 2 2
MIRT527988 TSLP thymic stromal lymphopoietin 2 2
MIRT532202 MPDU1 mannose-P-dolichol utilization defect 1 2 2
MIRT533691 TMEM86A transmembrane protein 86A 2 2
MIRT535020 PRMT7 protein arginine methyltransferase 7 2 4
MIRT535054 PQLC1 PQ loop repeat containing 1 2 2
MIRT538987 BCL2L2 BCL2 like 2 2 2
MIRT552232 SART3 squamous cell carcinoma antigen recognized by T-cells 3 2 2
MIRT553259 TVP23C trans-golgi network vesicle protein 23 homolog C 2 2
MIRT555157 PTPDC1 protein tyrosine phosphatase domain containing 1 2 2
MIRT565202 TSC22D4 TSC22 domain family member 4 2 2
MIRT566199 PTP4A1 protein tyrosine phosphatase type IVA, member 1 2 2
MIRT566526 PARP16 poly(ADP-ribose) polymerase family member 16 2 2
MIRT568464 ARPP19 cAMP regulated phosphoprotein 19 2 2
MIRT572231 ATG2A autophagy related 2A 2 2
MIRT573096 NDUFA7 NADH:ubiquinone oxidoreductase subunit A7 2 2
MIRT573326 RFC5 replication factor C subunit 5 2 2
MIRT632802 KIAA2022 neurite extension and migration factor 2 2
MIRT646433 ARAP1 ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1 2 3
MIRT647826 MTG1 mitochondrial ribosome associated GTPase 1 2 4
MIRT652191 TRIM44 tripartite motif containing 44 2 2
MIRT653800 SIRPA signal regulatory protein alpha 2 2
MIRT666949 PKHD1 PKHD1, fibrocystin/polyductin 2 2
MIRT684833 SCAI suppressor of cancer cell invasion 2 2
MIRT687294 PARP2 poly(ADP-ribose) polymerase 2 2 2
MIRT700188 RIMKLB ribosomal modification protein rimK like family member B 2 2
MIRT701784 MSL2 MSL complex subunit 2 2 2
MIRT705958 ACY1 aminoacylase 1 2 2
MIRT705998 ABHD14A-ACY1 ABHD14A-ACY1 readthrough 2 2
MIRT717107 PXDC1 PX domain containing 1 2 2
MIRT717586 VTA1 vesicle trafficking 1 2 2
MIRT722148 SLC2A8 solute carrier family 2 member 8 2 2
MIRT723479 WIPF2 WAS/WASL interacting protein family member 2 2 2
MIRT725221 PEA15 phosphoprotein enriched in astrocytes 15 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-4323 Cisplatin 5460033 NSC119875 approved resistant High Hypopharyngeal Cancer cell line (FaDu)
hsa-mir-4323 Paclitaxel 36314 NSC125973 approved sensitive cell line (W1)
hsa-mir-4323 Doxorubicin 31703 NSC123127 approved sensitive cell line (W1)
hsa-mir-4323 Methotrexate 126941 NSC740 approved sensitive cell line (W1)
hsa-mir-4323 Topotecan 60699 NSC609699 approved sensitive cell line (W1)
hsa-mir-4323 Vincristine 5978 approved sensitive cell line (W1)
hsa-mir-4323 Docetaxel+Cisplatin+5-Fluorouracil resistant tissue (hypopharyngeal squamous cell carcinoma)
hsa-miR-4323 Tripterygium wilfordii Hook F resistant tissue
hsa-miR-4323 Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)
hsa-miR-4323 Neoadjuvant chemotherapy resistant tissue (breast cancer)
hsa-miR-4323 Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (1500 ng/ml)
hsa-miR-4323 Gemcitabine 60750 NSC613327 approved resistant cell line (Panc1-GR4)

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