miRTarBase - #MIRT461728


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pre-miRNA Information
pre-miRNA hsa-mir-4283-1   
Genomic Coordinates chr7: 56955785 - 56955864
Description Homo sapiens miR-4283-1 stem-loop
Comment None
RNA Secondary Structure
pre-miRNA hsa-mir-4283-2   
Genomic Coordinates chr7: 63621090 - 63621169
Description Homo sapiens miR-4283-2 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4283
Sequence 11| UGGGGCUCAGCGAGUUU |27
Evidence Experimental
Experiments SOLiD
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1465673533 6 dbSNP
rs1170916691 8 dbSNP
rs1318965636 9 dbSNP
rs1372440894 11 dbSNP
rs1268430213 11 dbSNP
rs1430450794 12 dbSNP
rs1480893789 12 dbSNP
rs1304625952 13 dbSNP
rs1451132774 17 dbSNP
Putative Targets

miRNA Expression profile
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol SLC27A1   
Synonyms ACSVL5, FATP, FATP-1, FATP1
Description solute carrier family 27 member 1
Transcript NM_198580   
Expression
Putative miRNA Targets on SLC27A1
3'UTR of SLC27A1
(miRNA target sites are highlighted)		 
>SLC27A1|NM_198580|3'UTR
   1 AGCTGTTCCTCTACTGGCCACAAACTCTGGGCCTGGTGGGAGAGGCCAGCTTGAGCCAGACAGCGCTGCCCAGGGGTGGC
  81 CGCCTAGTACACACCCACCTGGCCGAGCTGTACCTGGCACGGCCCATCCTGGACTGAGAAACTGGAACCTCAGAGGAACC
 161 CGTGCCTCTCTGCTGCCTTGGTGCCCCTGTGTCTGCCTCCTCTCCCTGCTTTTCAGCCTCTGTCTCCTTCCATCCCTGTC
 241 CCTGTCTGGCCTTAACTCTTCCCTCTTTTTCTTTTCTTTCTTTCTTTCTTTTTTTTTTAAGATAGAGTCTCACTCTGCTG
 321 CCCGGGCTAGAGTGCAGTGGTGGGATCTCGGCTCACTGCAACCTCTGCCTCCTGGGGTTCAAGTGATCCTCCCACCTCAG
 401 CCTCCTGAGTAGCTGGGATTACAGGCACCCGCCACCACGTCCAGCTAATTTTTATATTTTTAGTAGAGACGGGGTTTCAC
 481 CATGTTGGTCAGGTTGGTCTTGAACTCCTGACCTCAGGTGATCCGCTGGCCTCGGCCTCCCAGAGTGCTGGGATTATAGG
 561 CGTGAGCCTCTGGCCCGGCCTTTCCTTTTTCCTCTCCTCTCCTGCCGAGAGTGGAACACGCGTGTCCTGGGAGCTGCATC
 641 TTGTGTAGGGTCCAGCTGCTTTTGGGGACTGCAGGAATCATCTCCCCTGGGCCCTGGACTCGGACTGGGGCCTCCCCACC
 721 TCCCTCTCGGCTGTGCCTTACGGAGCCCCGATCCAGGCCTCCTGTGGCTGTTGGGTTCCAGATGCTGCAGCTCCATGTGA
 801 CTTCCAAGCAGGCCCTCCGCCCTCCCTGCTGAATGGAGGAGCCGGGGGTCCCCCAGGCCAACTGGAAAATCTCCCAGGCT
 881 AGGCCAATTGCCTTTTGCACTTCCCCGTTCCTGTCACATTTCCCCAGCCCCACCTTCCCCTCCTGATGCCCTGAAAGCTT
 961 CCGGAATTGACTGTGACCACTTGGATGTCACCACTGTCAGCCCCTGCCTTGATGTCCCCATTTAGCCATCTCCATGGAGC
1041 TCCTGCTGGAGGGCCCTGAACCCTGCACTGCGTGGCTGCCCAGCCAGCTGCCTCCTGTCCTGGGAGGAGGCCTCCTGGGT
1121 GTCCTCATCTGGTGTGTCTACTGGAGGGTCCCACAGGAGAGGCAGCAGAGGGGTCAGGGGAGGTCTCCTGCCGGGGGTTG
1201 GCCTCTCAAGCCTCAGGGGTTCTAGCCTGTTGAATATACCCCACCTGGTGGTGGCCCCTCCGATGTCCCCACTGATGGCT
1281 CTGACACCGTGTTGGTGGCGATGTCCCAGACAATCCCACCAGGACGGCCCAGACATCCCTACTGGCTTCGCTGGTGGCTC
1361 ATCTCGAACATCCACGCCAGCCTTTCTGGGGCCGGCCACCCAGGCCGCCTGTCCGTCTGTCCTCCCTCCAGCAGCACCCC
1441 CTGGCCCCTGGAGTGGTGGGGCCATGGCAAGAGACACCGTGGCGTCTCATGTGAACTTTCCTGGGCACTGTGGTTTTATT
1521 TCCTAATTGATTTAAGAAATAAACCTGAAGACCGTCAAAAAAAAAAAAAAA
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' uuuGAGCGACUCGGGGu 5'
             ||: | ||||||| 
Target 5' tgcCTTACGGAGCCCCg 3'
 734 - 750 150.00 -16.20
2 
miRNA  3' uuugagCG-ACUCGGGGu 5'
                || ||||||:| 
Target 5' ttatagGCGTGAGCCTCt 3'
 554 - 571 131.00 -14.70
3 
miRNA  3' uuuGAGCGA-CUCGGGGu 5'
             |||  | ||||:|| 
Target 5' catCTCCATGGAGCTCCt 3'
 1027 - 1044 130.00 -13.00
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN31610321 14 COSMIC
COSN30165965 21 COSMIC
COSN13787666 66 COSMIC
COSN30132746 69 COSMIC
COSN30718935 83 COSMIC
COSN31957575 110 COSMIC
COSN1211921 126 COSMIC
COSN17993869 189 COSMIC
COSN28836261 299 COSMIC
COSN28792456 495 COSMIC
COSN31490506 532 COSMIC
COSN28659182 621 COSMIC
COSN28728309 751 COSMIC
COSN2488015 888 COSMIC
COSN31579011 898 COSMIC
COSN23337082 963 COSMIC
COSN17078182 1406 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1426949392 2 dbSNP
rs373412967 3 dbSNP
rs1473348005 6 dbSNP
rs779233180 8 dbSNP
rs377300425 9 dbSNP
rs1416757571 12 dbSNP
rs1160001094 14 dbSNP
rs1175605127 15 dbSNP
rs369947741 16 dbSNP
rs770073559 19 dbSNP
rs781162579 23 dbSNP
rs745733812 36 dbSNP
rs769866361 38 dbSNP
rs1448550691 39 dbSNP
rs1279159141 41 dbSNP
rs199771137 43 dbSNP
rs1242392005 46 dbSNP
rs1224466127 49 dbSNP
rs748895677 50 dbSNP
rs1347250777 51 dbSNP
rs928898475 53 dbSNP
rs898445955 56 dbSNP
rs1221634781 57 dbSNP
rs532377783 64 dbSNP
rs995418043 64 dbSNP
rs886781076 65 dbSNP
rs568106694 66 dbSNP
rs774103233 69 dbSNP
rs1204314221 77 dbSNP
rs1231947302 79 dbSNP
rs1456212292 80 dbSNP
rs761396878 81 dbSNP
rs142694378 82 dbSNP
rs773575275 83 dbSNP
rs1317090789 87 dbSNP
rs914757144 93 dbSNP
rs1171662077 95 dbSNP
rs761115813 96 dbSNP
rs1414825354 97 dbSNP
rs1328002310 100 dbSNP
rs766934450 101 dbSNP
rs1408820855 104 dbSNP
rs557064087 105 dbSNP
rs755131411 106 dbSNP
rs899577510 109 dbSNP
rs183724830 111 dbSNP
rs1204770806 112 dbSNP
rs1438863073 117 dbSNP
rs1277087437 119 dbSNP
rs752923071 121 dbSNP
rs758552719 122 dbSNP
rs781076125 123 dbSNP
rs745715850 124 dbSNP
rs756117368 125 dbSNP
rs780183043 126 dbSNP
rs748726991 127 dbSNP
rs1196219802 139 dbSNP
rs1248374584 142 dbSNP
rs964109665 149 dbSNP
rs1167267050 152 dbSNP
rs1421158053 154 dbSNP
rs1467011384 155 dbSNP
rs1171620910 156 dbSNP
rs768166497 157 dbSNP
rs778320132 162 dbSNP
rs747774770 163 dbSNP
rs1331764937 165 dbSNP
rs1309383517 173 dbSNP
rs1407555048 175 dbSNP
rs1430558238 176 dbSNP
rs1268963318 178 dbSNP
rs747000106 184 dbSNP
rs771729270 186 dbSNP
rs199668849 187 dbSNP
rs773558885 188 dbSNP
rs10417922 189 dbSNP
rs1207716073 197 dbSNP
rs541384109 201 dbSNP
rs1451709607 205 dbSNP
rs1455557295 206 dbSNP
rs553223596 207 dbSNP
rs1163054422 209 dbSNP
rs1442837671 210 dbSNP
rs1021735226 214 dbSNP
rs1260999787 216 dbSNP
rs1478661445 220 dbSNP
rs1408158542 221 dbSNP
rs968976269 221 dbSNP
rs1194203276 227 dbSNP
rs545228977 228 dbSNP
rs771403950 229 dbSNP
rs1165222802 230 dbSNP
rs777143344 232 dbSNP
rs573204490 233 dbSNP
rs765292093 234 dbSNP
rs1486664892 240 dbSNP
rs1363083637 242 dbSNP
rs977638740 243 dbSNP
rs1293006614 245 dbSNP
rs924816455 246 dbSNP
rs898332246 247 dbSNP
rs960073734 248 dbSNP
rs1242112716 249 dbSNP
rs752732712 250 dbSNP
rs1023082082 253 dbSNP
rs1293211290 263 dbSNP
rs376449154 266 dbSNP
rs780888887 266 dbSNP
rs1283792148 267 dbSNP
rs1489263444 268 dbSNP
rs1341417818 273 dbSNP
rs552185453 273 dbSNP
rs1422898870 275 dbSNP
rs749783933 280 dbSNP
rs763253760 284 dbSNP
rs542371771 285 dbSNP
rs769923501 285 dbSNP
rs777735665 288 dbSNP
rs1478344298 289 dbSNP
rs371367749 289 dbSNP
rs763018538 289 dbSNP
rs774821039 289 dbSNP
rs775481914 289 dbSNP
rs943737714 291 dbSNP
rs1369314838 292 dbSNP
rs1469690160 294 dbSNP
rs1035709787 299 dbSNP
rs1156996135 300 dbSNP
rs10418172 304 dbSNP
rs1209869486 304 dbSNP
rs1338715750 306 dbSNP
rs899620505 308 dbSNP
rs996544413 324 dbSNP
rs575843461 325 dbSNP
rs1386410383 330 dbSNP
rs779427429 333 dbSNP
rs1324320652 335 dbSNP
rs947619314 350 dbSNP
rs975304254 351 dbSNP
rs1341145442 353 dbSNP
rs1170143423 361 dbSNP
rs1466539337 362 dbSNP
rs1429038504 368 dbSNP
rs904700200 375 dbSNP
rs1479268314 376 dbSNP
rs921047333 378 dbSNP
rs186622801 379 dbSNP
rs1436712686 386 dbSNP
rs540268104 392 dbSNP
rs1031934814 407 dbSNP
rs916713348 428 dbSNP
rs1458113927 429 dbSNP
rs932411634 431 dbSNP
rs1325976300 432 dbSNP
rs533328309 432 dbSNP
rs890802306 436 dbSNP
rs1229436678 439 dbSNP
rs540651052 444 dbSNP
rs1036949777 450 dbSNP
rs898400497 455 dbSNP
rs1448191604 456 dbSNP
rs1405938558 457 dbSNP
rs1335188118 460 dbSNP
rs774267300 462 dbSNP
rs559637741 463 dbSNP
rs528405411 465 dbSNP
rs548505089 466 dbSNP
rs1279877853 471 dbSNP
rs762148001 472 dbSNP
rs1207400990 476 dbSNP
rs1002969133 484 dbSNP
rs10418594 495 dbSNP
rs973488165 499 dbSNP
rs956027041 502 dbSNP
rs1010238037 508 dbSNP
rs1021911147 514 dbSNP
rs1278986001 521 dbSNP
rs1472697280 525 dbSNP
rs137968411 526 dbSNP
rs1281376540 527 dbSNP
rs550371403 530 dbSNP
rs982999586 539 dbSNP
rs1313543754 544 dbSNP
rs1454981669 546 dbSNP
rs1360117687 547 dbSNP
rs1318008846 551 dbSNP
rs1399776387 557 dbSNP
rs975000111 558 dbSNP
rs546108338 560 dbSNP
rs922107012 563 dbSNP
rs1272009353 565 dbSNP
rs1181680288 566 dbSNP
rs1414024606 567 dbSNP
rs1473703557 570 dbSNP
rs954867057 571 dbSNP
rs1332235730 575 dbSNP
rs986518360 576 dbSNP
rs1192148031 577 dbSNP
rs1356310316 578 dbSNP
rs912310934 580 dbSNP
rs1288396440 590 dbSNP
rs1217515947 591 dbSNP
rs1410697144 595 dbSNP
rs1230545997 596 dbSNP
rs1270012731 597 dbSNP
rs1354795229 598 dbSNP
rs943938640 606 dbSNP
rs1349026120 607 dbSNP
rs939725724 608 dbSNP
rs1276023875 610 dbSNP
rs1400157771 611 dbSNP
rs1364421829 614 dbSNP
rs780108139 620 dbSNP
rs4808657 621 dbSNP
rs932278261 622 dbSNP
rs539000978 623 dbSNP
rs1483063665 626 dbSNP
rs1265703892 627 dbSNP
rs1204004829 649 dbSNP
rs1490232290 651 dbSNP
rs1266897626 666 dbSNP
rs919875518 682 dbSNP
rs931239387 683 dbSNP
rs1272897489 690 dbSNP
rs904250117 691 dbSNP
rs1320449150 694 dbSNP
rs141946014 698 dbSNP
rs1490795560 700 dbSNP
rs905699158 702 dbSNP
rs566173661 703 dbSNP
rs1199273838 713 dbSNP
rs1300784818 714 dbSNP
rs1437956013 716 dbSNP
rs1057275499 717 dbSNP
rs891877630 718 dbSNP
rs1010266074 728 dbSNP
rs1477015905 729 dbSNP
rs1022064738 730 dbSNP
rs968720482 742 dbSNP
rs996840855 743 dbSNP
rs970054116 746 dbSNP
rs1427427480 749 dbSNP
rs193262179 750 dbSNP
rs2278280 751 dbSNP
rs987592842 757 dbSNP
rs1324585183 758 dbSNP
rs1459440708 758 dbSNP
rs371890022 770 dbSNP
rs73922216 771 dbSNP
rs1434976701 774 dbSNP
rs1272364323 775 dbSNP
rs1322455172 776 dbSNP
rs74417244 779 dbSNP
rs558252316 782 dbSNP
rs1272097205 784 dbSNP
rs919596535 797 dbSNP
rs1278386761 805 dbSNP
rs1444503510 813 dbSNP
rs759513728 819 dbSNP
rs764850185 820 dbSNP
rs977076702 822 dbSNP
rs752170621 823 dbSNP
rs921144056 829 dbSNP
rs927230047 832 dbSNP
rs938528948 836 dbSNP
rs1056972617 844 dbSNP
rs891611916 845 dbSNP
rs1175512041 848 dbSNP
rs1195249941 849 dbSNP
rs932330629 853 dbSNP
rs1203495143 857 dbSNP
rs748514188 860 dbSNP
rs1211817069 866 dbSNP
rs1312362222 872 dbSNP
rs1305711167 878 dbSNP
rs1248566901 885 dbSNP
rs1450236240 894 dbSNP
rs1043112435 898 dbSNP
rs10418275 905 dbSNP
rs529689435 907 dbSNP
rs777291449 908 dbSNP
rs1344794300 913 dbSNP
rs890697149 914 dbSNP
rs1014392927 919 dbSNP
rs559368756 921 dbSNP
rs1214932121 923 dbSNP
rs1015063232 924 dbSNP
rs962153766 925 dbSNP
rs529335410 928 dbSNP
rs1259764198 929 dbSNP
rs1027642093 931 dbSNP
rs541735897 935 dbSNP
rs1355226267 941 dbSNP
rs751150875 943 dbSNP
rs562032231 945 dbSNP
rs867477021 950 dbSNP
rs549713957 951 dbSNP
rs1026695558 962 dbSNP
rs185374716 963 dbSNP
rs77674303 964 dbSNP
rs1361260603 978 dbSNP
rs976524938 988 dbSNP
rs1264432284 992 dbSNP
rs1354081506 993 dbSNP
rs1165996519 999 dbSNP
rs1428281749 1004 dbSNP
rs1260690769 1009 dbSNP
rs927222413 1012 dbSNP
rs1489037095 1015 dbSNP
rs1263308875 1020 dbSNP
rs921198080 1028 dbSNP
rs756525992 1034 dbSNP
rs978433117 1036 dbSNP
rs1306709008 1040 dbSNP
rs925619130 1040 dbSNP
rs34915798 1042 dbSNP
rs938599760 1043 dbSNP
rs1268751121 1048 dbSNP
rs992715999 1062 dbSNP
rs1341319512 1064 dbSNP
rs780395211 1070 dbSNP
rs570171868 1072 dbSNP
rs913078511 1073 dbSNP
rs916979689 1080 dbSNP
rs967709703 1090 dbSNP
rs1421954175 1093 dbSNP
rs1173221959 1098 dbSNP
rs1478619849 1103 dbSNP
rs1044566848 1109 dbSNP
rs1197611923 1119 dbSNP
rs1449373918 1122 dbSNP
rs1268754798 1127 dbSNP
rs945823690 1133 dbSNP
rs1043575532 1138 dbSNP
rs1188589077 1143 dbSNP
rs1368102132 1149 dbSNP
rs1480239807 1154 dbSNP
rs1255955056 1156 dbSNP
rs1200271157 1162 dbSNP
rs1318933807 1165 dbSNP
rs1282873009 1171 dbSNP
rs1231248377 1175 dbSNP
rs1302003552 1176 dbSNP
rs995078859 1176 dbSNP
rs904600967 1181 dbSNP
rs1391352384 1191 dbSNP
rs1049128782 1192 dbSNP
rs886439944 1193 dbSNP
rs932006244 1193 dbSNP
rs532619916 1194 dbSNP
rs1457195029 1197 dbSNP
rs1476803302 1202 dbSNP
rs749837844 1204 dbSNP
rs532857080 1207 dbSNP
rs1019460182 1212 dbSNP
rs966130766 1213 dbSNP
rs1439054558 1216 dbSNP
rs546339062 1217 dbSNP
rs1200368219 1219 dbSNP
rs35811276 1222 dbSNP
rs1458046097 1224 dbSNP
rs1277575284 1238 dbSNP
rs1396106688 1239 dbSNP
rs1347338730 1262 dbSNP
rs58215408 1263 dbSNP
rs1238390642 1264 dbSNP
rs1338317464 1265 dbSNP
rs954002560 1266 dbSNP
rs978652343 1269 dbSNP
rs897998834 1271 dbSNP
rs1032895446 1278 dbSNP
rs1382513973 1286 dbSNP
rs535470066 1289 dbSNP
rs1027184106 1290 dbSNP
rs748207948 1293 dbSNP
rs952481189 1301 dbSNP
rs980198433 1305 dbSNP
rs917011601 1315 dbSNP
rs1172708208 1318 dbSNP
rs1034030840 1323 dbSNP
rs772124619 1324 dbSNP
rs555747862 1326 dbSNP
rs15401 1327 dbSNP
rs1440176635 1330 dbSNP
rs538005540 1331 dbSNP
rs1185099869 1346 dbSNP
rs115113291 1350 dbSNP
rs978607422 1351 dbSNP
rs770888444 1359 dbSNP
rs926055104 1366 dbSNP
rs1351604763 1367 dbSNP
rs1288180732 1372 dbSNP
rs1359296428 1376 dbSNP
rs190319272 1376 dbSNP
rs1050439999 1377 dbSNP
rs940705348 1378 dbSNP
rs1341954558 1383 dbSNP
rs911899133 1387 dbSNP
rs1334398587 1388 dbSNP
rs115831677 1394 dbSNP
rs1358093802 1394 dbSNP
rs181516488 1398 dbSNP
rs1420267720 1399 dbSNP
rs898073946 1402 dbSNP
rs996215318 1405 dbSNP
rs995443680 1407 dbSNP
rs1368755926 1408 dbSNP
rs374342197 1409 dbSNP
rs9137 1413 dbSNP
rs905330954 1415 dbSNP
rs889625000 1416 dbSNP
rs1001299948 1427 dbSNP
rs543030692 1438 dbSNP
rs1033363537 1439 dbSNP
rs1230453371 1440 dbSNP
rs1357506786 1441 dbSNP
rs759356038 1445 dbSNP
rs1308199122 1452 dbSNP
rs1034061814 1456 dbSNP
rs1337911766 1459 dbSNP
rs1226331547 1465 dbSNP
rs765117931 1467 dbSNP
rs1045243 1472 dbSNP
rs1349290580 1476 dbSNP
rs959734796 1477 dbSNP
rs561787408 1478 dbSNP
rs1303382936 1479 dbSNP
rs1312668760 1480 dbSNP
rs1232389722 1482 dbSNP
rs575504964 1484 dbSNP
rs1020242886 1485 dbSNP
rs1194551601 1490 dbSNP
rs1477737305 1490 dbSNP
rs544143864 1491 dbSNP
rs1023967188 1500 dbSNP
rs971173609 1502 dbSNP
rs1452647490 1504 dbSNP
rs372909651 1508 dbSNP
rs866666139 1512 dbSNP
rs752612691 1516 dbSNP
rs979065085 1518 dbSNP
rs925819487 1523 dbSNP
rs184463140 1526 dbSNP
rs763645477 1530 dbSNP
rs1272522702 1532 dbSNP
rs1434285221 1538 dbSNP
rs1350365083 1541 dbSNP
rs911972692 1551 dbSNP
rs150659494 1554 dbSNP
rs770167678 1555 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' uuugagcgacucGGGGu 5'
                      |||| 
Target 5' ----cccaccuuCCCCu 3'
 		1 - 13
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 ENST00000252595.7 | 3UTR | CCCACCUUCCCCUCCUG
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
53 hsa-miR-4283 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT083347 E2F1 E2F transcription factor 1 2 4
MIRT120466 U2SURP U2 snRNP associated SURP domain containing 2 4
MIRT266892 HDGF heparin binding growth factor 2 2
MIRT445166 TFPI tissue factor pathway inhibitor 2 2
MIRT445906 SLC10A3 solute carrier family 10 member 3 2 2
MIRT455530 GJB1 gap junction protein beta 1 2 2
MIRT460172 UNK unkempt family zinc finger 2 6
MIRT461728 SLC27A1 solute carrier family 27 member 1 2 2
MIRT465219 TRIP10 thyroid hormone receptor interactor 10 2 2
MIRT468911 RPS6KA4 ribosomal protein S6 kinase A4 2 2
MIRT469691 RAB5B RAB5B, member RAS oncogene family 2 2
MIRT471050 PIM3 Pim-3 proto-oncogene, serine/threonine kinase 2 2
MIRT472526 NACC1 nucleus accumbens associated 1 2 2
MIRT474932 KCTD15 potassium channel tetramerization domain containing 15 2 2
MIRT486980 STEAP3 STEAP3 metalloreductase 2 4
MIRT487483 BANP BTG3 associated nuclear protein 2 4
MIRT488263 HSP90AB1 heat shock protein 90 alpha family class B member 1 2 8
MIRT490733 SRCIN1 SRC kinase signaling inhibitor 1 2 2
MIRT490896 BARHL1 BarH like homeobox 1 2 6
MIRT490909 STRN4 striatin 4 2 2
MIRT493812 FSCN1 fascin actin-bundling protein 1 2 2
MIRT509030 PALM2-AKAP2 PALM2-AKAP2 readthrough 2 2
MIRT509049 AKAP2 A-kinase anchoring protein 2 2 2
MIRT509404 MCM7 minichromosome maintenance complex component 7 2 6
MIRT523303 HIST1H1B histone cluster 1 H1 family member b 2 2
MIRT529487 TPD52L3 tumor protein D52 like 3 2 2
MIRT529825 ARGFX arginine-fifty homeobox 2 4
MIRT542941 GIGYF1 GRB10 interacting GYF protein 1 2 2
MIRT543668 PUM1 pumilio RNA binding family member 1 2 4
MIRT546994 PPP2CA protein phosphatase 2 catalytic subunit alpha 2 2
MIRT560377 TIMM8A translocase of inner mitochondrial membrane 8A 2 2
MIRT561752 PLAGL2 PLAG1 like zinc finger 2 2 2
MIRT568966 CACNA1C calcium voltage-gated channel subunit alpha1 C 2 2
MIRT569892 ROBO4 roundabout guidance receptor 4 2 2
MIRT570097 SCN2B sodium voltage-gated channel beta subunit 2 2 2
MIRT576503 Slc35e2 solute carrier family 35, member E2 2 3
MIRT623795 GK5 glycerol kinase 5 (putative) 2 2
MIRT625142 ITPRIPL1 inositol 1,4,5-trisphosphate receptor interacting protein-like 1 2 2
MIRT631438 HSPA14 heat shock protein family A (Hsp70) member 14 2 2
MIRT633973 SLC35E2 solute carrier family 35 member E2 2 3
MIRT634811 ASB6 ankyrin repeat and SOCS box containing 6 2 2
MIRT640520 TET3 tet methylcytosine dioxygenase 3 2 2
MIRT644446 ALDOC aldolase, fructose-bisphosphate C 2 2
MIRT644767 TXNRD3NB thioredoxin reductase 3 neighbor 2 2
MIRT648809 ZNF689 zinc finger protein 689 2 2
MIRT654912 POMGNT1 protein O-linked mannose N-acetylglucosaminyltransferase 1 (beta 1,2-) 2 2
MIRT670832 SFT2D2 SFT2 domain containing 2 2 2
MIRT675826 UBE2D4 ubiquitin conjugating enzyme E2 D4 (putative) 2 2
MIRT684020 FOLR1 folate receptor 1 2 2
MIRT698589 TEX261 testis expressed 261 2 2
MIRT703208 GOLGA3 golgin A3 2 2
MIRT703492 FNDC3B fibronectin type III domain containing 3B 2 2
MIRT710754 GRID1 glutamate ionotropic receptor delta type subunit 1 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-4 Dexamethasone approved 5743 Microarray primary rat thymocytes 20847043 2010 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4283 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-4283 Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (100 ng/ml)

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