miRTarBase - #MIRT489562


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pre-miRNA Information
pre-miRNA hsa-mir-4667   
Genomic Coordinates chr9: 35608094 - 35608159
Description Homo sapiens miR-4667 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4667-3p
Sequence 46| UCCCUCCUUCUGUCCCCACAG |66
Evidence Experimental
Experiments Illumina
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSM9588049 20 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs774051936 3 dbSNP
rs1178819936 5 dbSNP
rs1467653371 6 dbSNP
rs770405488 6 dbSNP
rs776175657 7 dbSNP
rs370758546 11 dbSNP
rs1341648855 13 dbSNP
rs1023852947 14 dbSNP
rs374809971 19 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol PLD6   
Synonyms ZUC
Description phospholipase D family member 6
Transcript NM_178836   
Expression
Putative miRNA Targets on PLD6
3'UTR of PLD6
(miRNA target sites are highlighted)		 
>PLD6|NM_178836|3'UTR
   1 CCAAGAATGGGGCTGAGCCCTCCCTGCGGGCTGCTGTGCGTTCTGAGGGAGGGAGACCTCGGCACTAGAAAAAAATCGTT
  81 AAACTAAAGTCTCGTCTATTAGAATACTAAATTGAACTAAAGAAGGTTAGGAAAGGGAAATTTCTGTTACTTCGGGTCAG
 161 TTATTTCGGGCCAGACCTTTTTCTTGCTCCTTTGCCAAAATAACTTCAGTCACGACCTGCCACGGGGTGCTTTCATGAGT
 241 GTGGTCCGTATCTTGGTTTGGAATCGAAACTTCTGCTACAGCACAGAAAAGGCACAGTGCCTCTTCCAGGTCGATCCCAT
 321 TCCCTTCCCTGATTCTAGAAAAGTCCCTCCTGCTTTGGCTGATGTGGGCCCTTTCAGCATCTCCCTGAGATTTCATCCCT
 401 CTCTCCATGTGGCACGACTGGGGTTGGTTGGGGCCTACAGTCTCCTTGTCCCTCACAGTCTGCCCCTGTCAGGGCTCGGT
 481 CCTCAGAGTAAGGAAAGGAAATGGAAGTCAGGAGGAAGGGAAGATGTGAGTGTGCGGTGCGGGTGGCAAAAGCAGCCTTC
 561 GGGGCAACCCCGTGAGCGTCATTGCCACCAAAGGCTGGCTGTTCCCTTGATTCCTTGCATAATTGCTCTTTAAAACCAGT
 641 ATGCACGCCAGTGCCAAGCTCTTCAGCAGCCTGTCCTTGGGTAGTAAGTGCTGTGGTCTGTCAGGACTGATGGCCAGCAG
 721 CTGTTTCTATGTTGGGCTTTTAACTTTTTTTATTTTATTTATTTATTTATTTATCTTTTTTGAGATGGAGTCTCACTCTG
 801 TGGCCCAGGCTGGAGTGCAGTGGCACAACCTCGGCTCACTGCATCCTCTGCCTCCTGGGTTCAAACGATTGTCCTGCCTC
 881 AGCCTCCCGAGTAGCTGGGATTACAGGTGCCTGCCACAACACCTGGCTGATTTTTTTTTTGGTATTTTTAGTAGAGACAG
 961 GGTTTCACCATGTTGGTTAGGCTGGTCTCAAACTCCTGACCTCAAGTGATCCACCACTTCCGCCTCCCAAAGTGCTGGGA
1041 TTACAGGTGTGAGCCGCCATGCCCGGCCGGGCTTTTAACTTTTAATGTCCTAATGTTAAGGTAATTTTGTTGTGTGTTTA
1121 GAAGTGACCTTACCTTTAACACCTGTGGAGTTAGTGCGTGCACATTGCTGGCTCAGCGTAACCCATCACGGGACCGGAGG
1201 AGAGGAGAGCGGGGAAGAGGAGAGCAGCTTCAGGCCGTGGTGTCTCCCACGTCTGTGTTCTTATTTGCAGCTCAGGGTTT
1281 GCATTCCCAGGTAGAACAGGTGTCGTACACTGTGAAATGTTCCAGGTTATTTGTTTATAATGTGTGTGTCATATACAGAT
1361 AGCTCCGATGACATCTGAAGTTGTGACTTCATCATCTTGTCATATTTCTGTATGATGAGCCCCAGGGCCCATCCTGAGGT
1441 CTGCTAGCCATGTGCTTAGTCTCACCTCCCCAGCCCACGCTGGCATTACCACCCAGAGACCCTTCAGTGCTGTGTGTTTT
1521 TCCTTTTTAGGGTTACTTTTGACTCACAGTGTTAGGCAAGCCAGCTTGGAAGTTAACTTTTAAAAAAATTCAATTGAAGC
1601 TGTAAAGTATAATATATAGATTGGAAGTCACCAGAAATTGTTTTAGTTTGTGAATTCCCCCAGTGTATGTTCTGAAAAGA
1681 AAATGGGAGAGCTTGTAAAGCATCTCCTAAATGCGAAGCCGCGTGACCCTGGACTTCTGGCACATCTGAATAAACATGTT
1761 CTTATTCTGGAAAAAAAAAAAAAAAA
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' gaCACCCCUGUCUUCCUCCCu 5'
            ||| |  | ||:|||||| 
Target 5' ctGTGCGTTCTGAGGGAGGGa 3'
 34 - 54 147.00 -24.80
2 
miRNA  3' gacacCCCUGUCUUCCUCCCu 5'
               ||||| |:||||| | 
Target 5' atcacGGGACCGGAGGAGAGg 3'
 1185 - 1205 136.00 -23.00
3 
miRNA  3' gacACC-CCUGUCUUCCUCCCu 5'
             |||  | |||:|||| || 
Target 5' aaaTGGAAGTCAGGAGGAAGGg 3'
 499 - 520 130.00 -20.50
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30535325 20 COSMIC
COSN13703205 77 COSMIC
COSN31564307 78 COSMIC
COSN6099940 541 COSMIC
COSN31961287 682 COSMIC
COSN27071039 738 COSMIC
COSN29595309 930 COSMIC
COSN19531105 1248 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs770101410 1 dbSNP
rs1431894236 2 dbSNP
rs373284736 7 dbSNP
rs781642633 11 dbSNP
rs943071123 12 dbSNP
rs1417872259 18 dbSNP
rs755548668 19 dbSNP
rs1473976455 20 dbSNP
rs1273060710 24 dbSNP
rs764692117 25 dbSNP
rs1421529007 26 dbSNP
rs752105442 27 dbSNP
rs34585164 28 dbSNP
rs1231220573 33 dbSNP
rs1437624079 35 dbSNP
rs1240174174 36 dbSNP
rs374821991 38 dbSNP
rs201261287 39 dbSNP
rs539485372 40 dbSNP
rs770815360 40 dbSNP
rs1274103121 49 dbSNP
rs1235088870 51 dbSNP
rs1276570082 53 dbSNP
rs1342703070 57 dbSNP
rs1218440588 60 dbSNP
rs946766054 61 dbSNP
rs915328731 62 dbSNP
rs925551289 65 dbSNP
rs974680680 73 dbSNP
rs138353668 75 dbSNP
rs1468554091 78 dbSNP
rs867488663 78 dbSNP
rs146329647 82 dbSNP
rs1172496094 86 dbSNP
rs1459127700 89 dbSNP
rs918116357 89 dbSNP
rs74604015 93 dbSNP
rs568998769 94 dbSNP
rs1441776174 96 dbSNP
rs767655024 98 dbSNP
rs761897599 101 dbSNP
rs973265108 104 dbSNP
rs984799919 105 dbSNP
rs1378520125 107 dbSNP
rs1280035524 121 dbSNP
rs374016688 123 dbSNP
rs548914394 136 dbSNP
rs528951219 138 dbSNP
rs1226289246 139 dbSNP
rs2270400 141 dbSNP
rs1026211506 144 dbSNP
rs774633657 152 dbSNP
rs1284927629 153 dbSNP
rs769568902 154 dbSNP
rs1333919789 160 dbSNP
rs141992360 164 dbSNP
rs540646113 167 dbSNP
rs75836479 168 dbSNP
rs1411522322 169 dbSNP
rs1162319630 172 dbSNP
rs555087518 178 dbSNP
rs1388715781 188 dbSNP
rs1004173095 189 dbSNP
rs1329476526 195 dbSNP
rs776521845 197 dbSNP
rs1413879439 200 dbSNP
rs1352210451 204 dbSNP
rs1407767146 208 dbSNP
rs1287427073 211 dbSNP
rs765576249 213 dbSNP
rs1007402633 214 dbSNP
rs888834901 216 dbSNP
rs902782425 223 dbSNP
rs564605022 227 dbSNP
rs1195821607 231 dbSNP
rs1042910636 235 dbSNP
rs1484285019 240 dbSNP
rs1203612640 242 dbSNP
rs1251630329 243 dbSNP
rs1231705231 247 dbSNP
rs946912865 248 dbSNP
rs1366883998 249 dbSNP
rs544864507 251 dbSNP
rs893890729 255 dbSNP
rs1168499652 263 dbSNP
rs1039118305 265 dbSNP
rs1307338368 266 dbSNP
rs945606676 267 dbSNP
rs1397543060 268 dbSNP
rs575865318 273 dbSNP
rs943362438 277 dbSNP
rs911864860 278 dbSNP
rs1240481585 280 dbSNP
rs987510057 282 dbSNP
rs1212056757 283 dbSNP
rs1321358751 284 dbSNP
rs1226892788 289 dbSNP
rs929176847 293 dbSNP
rs138814126 295 dbSNP
rs1483794086 307 dbSNP
rs1230118673 308 dbSNP
rs1348402988 312 dbSNP
rs1308400449 313 dbSNP
rs985304275 318 dbSNP
rs1441997755 331 dbSNP
rs1189444632 333 dbSNP
rs973638583 340 dbSNP
rs143216890 350 dbSNP
rs1447705551 352 dbSNP
rs1167940880 365 dbSNP
rs963244799 366 dbSNP
rs1378085554 369 dbSNP
rs369828180 380 dbSNP
rs1300797050 384 dbSNP
rs73981904 394 dbSNP
rs959788141 398 dbSNP
rs4985749 399 dbSNP
rs149222494 401 dbSNP
rs967330821 403 dbSNP
rs1398424479 406 dbSNP
rs1379209851 407 dbSNP
rs570795883 415 dbSNP
rs557092342 423 dbSNP
rs538101919 425 dbSNP
rs1235902188 426 dbSNP
rs1254684099 436 dbSNP
rs1382488657 437 dbSNP
rs953234498 438 dbSNP
rs1209643231 439 dbSNP
rs747698310 439 dbSNP
rs1250113954 440 dbSNP
rs1192158616 448 dbSNP
rs569060906 463 dbSNP
rs1032746522 464 dbSNP
rs1011473606 465 dbSNP
rs9908205 466 dbSNP
rs1224104193 468 dbSNP
rs1039192136 477 dbSNP
rs1007576742 478 dbSNP
rs1445330622 481 dbSNP
rs1285470901 483 dbSNP
rs566776158 488 dbSNP
rs890544497 493 dbSNP
rs1389103181 496 dbSNP
rs1299784768 499 dbSNP
rs1330940547 508 dbSNP
rs1229345963 513 dbSNP
rs1270288010 515 dbSNP
rs552665626 517 dbSNP
rs1240780907 519 dbSNP
rs1052166543 520 dbSNP
rs535823116 535 dbSNP
rs1266173217 536 dbSNP
rs796642410 537 dbSNP
rs919168214 540 dbSNP
rs1037645704 554 dbSNP
rs559986261 560 dbSNP
rs754293786 561 dbSNP
rs915717435 562 dbSNP
rs529142509 564 dbSNP
rs112756415 572 dbSNP
rs1428288679 576 dbSNP
rs369443459 577 dbSNP
rs566558693 578 dbSNP
rs1298284267 586 dbSNP
rs928411528 590 dbSNP
rs1049241757 594 dbSNP
rs919352948 597 dbSNP
rs972026013 601 dbSNP
rs977483905 604 dbSNP
rs376958388 605 dbSNP
rs1349004199 606 dbSNP
rs1385797570 607 dbSNP
rs1363024388 608 dbSNP
rs1323603315 615 dbSNP
rs1219413359 619 dbSNP
rs1174343755 623 dbSNP
rs1483306660 629 dbSNP
rs967109293 631 dbSNP
rs7212534 637 dbSNP
rs1249430271 643 dbSNP
rs1472125785 646 dbSNP
rs1182138672 647 dbSNP
rs138312741 659 dbSNP
rs564077426 661 dbSNP
rs958301706 664 dbSNP
rs1193121317 667 dbSNP
rs866096207 673 dbSNP
rs1431013487 680 dbSNP
rs1262481697 686 dbSNP
rs184532940 692 dbSNP
rs1369147239 702 dbSNP
rs1489207995 704 dbSNP
rs953228422 707 dbSNP
rs1278061997 714 dbSNP
rs1007691073 715 dbSNP
rs1000032971 716 dbSNP
rs890534712 723 dbSNP
rs1312544484 727 dbSNP
rs1342953870 737 dbSNP
rs756638588 742 dbSNP
rs531230180 750 dbSNP
rs993885573 751 dbSNP
rs1238852533 752 dbSNP
rs1339465337 752 dbSNP
rs897852781 757 dbSNP
rs1020065130 761 dbSNP
rs1401335755 761 dbSNP
rs34674814 771 dbSNP
rs1013871990 775 dbSNP
rs35571214 775 dbSNP
rs1388812497 776 dbSNP
rs1038118845 782 dbSNP
rs1353061781 787 dbSNP
rs1409753642 788 dbSNP
rs895509039 790 dbSNP
rs755613315 799 dbSNP
rs1466028930 812 dbSNP
rs562284242 824 dbSNP
rs2102645 825 dbSNP
rs1049656392 828 dbSNP
rs1055601898 830 dbSNP
rs930835546 832 dbSNP
rs1464212122 833 dbSNP
rs374866676 840 dbSNP
rs1423221543 849 dbSNP
rs919329259 852 dbSNP
rs1036489406 859 dbSNP
rs938529145 864 dbSNP
rs562795054 866 dbSNP
rs1248205567 867 dbSNP
rs1465884418 871 dbSNP
rs35962147 887 dbSNP
rs986146363 888 dbSNP
rs111301344 889 dbSNP
rs967545340 897 dbSNP
rs914220305 900 dbSNP
rs375645942 907 dbSNP
rs1176009151 910 dbSNP
rs1389605038 911 dbSNP
rs1257485739 916 dbSNP
rs1458891920 920 dbSNP
rs1318558919 931 dbSNP
rs77062253 931 dbSNP
rs1202215215 932 dbSNP
rs1325921752 932 dbSNP
rs1437193430 940 dbSNP
rs1276515334 941 dbSNP
rs796457194 941 dbSNP
rs1316873221 942 dbSNP
rs958251393 950 dbSNP
rs1017847985 951 dbSNP
rs774435104 957 dbSNP
rs986262856 958 dbSNP
rs545858708 962 dbSNP
rs1330697502 963 dbSNP
rs992565225 963 dbSNP
rs959794329 969 dbSNP
rs954926481 972 dbSNP
rs1220140399 976 dbSNP
rs1200255711 988 dbSNP
rs1477263249 989 dbSNP
rs1033937992 995 dbSNP
rs1030817306 1003 dbSNP
rs993564717 1007 dbSNP
rs1001226432 1010 dbSNP
rs897921228 1014 dbSNP
rs1027934472 1021 dbSNP
rs1311470852 1022 dbSNP
rs1325479144 1029 dbSNP
rs1016232810 1042 dbSNP
rs1347976941 1043 dbSNP
rs1395886647 1045 dbSNP
rs1288810677 1046 dbSNP
rs1352091021 1047 dbSNP
rs1006232683 1049 dbSNP
rs577274233 1051 dbSNP
rs532022262 1054 dbSNP
rs1055759771 1055 dbSNP
rs1356462343 1056 dbSNP
rs537097473 1064 dbSNP
rs1171638083 1065 dbSNP
rs938476732 1068 dbSNP
rs764343592 1069 dbSNP
rs1041960793 1071 dbSNP
rs771350371 1073 dbSNP
rs575487127 1083 dbSNP
rs914315574 1091 dbSNP
rs1258222595 1100 dbSNP
rs1179994222 1112 dbSNP
rs1363391740 1125 dbSNP
rs759306864 1128 dbSNP
rs1320041421 1130 dbSNP
rs1165015052 1134 dbSNP
rs978743008 1138 dbSNP
rs776364232 1145 dbSNP
rs942411928 1150 dbSNP
rs1308527156 1153 dbSNP
rs1328933469 1158 dbSNP
rs945863357 1159 dbSNP
rs910788873 1170 dbSNP
rs1327807568 1175 dbSNP
rs913034109 1176 dbSNP
rs573892649 1177 dbSNP
rs986372633 1178 dbSNP
rs117585493 1180 dbSNP
rs777764000 1189 dbSNP
rs972643307 1190 dbSNP
rs866431706 1194 dbSNP
rs144305480 1195 dbSNP
rs1028317852 1196 dbSNP
rs566646703 1197 dbSNP
rs34090080 1199 dbSNP
rs1171779860 1205 dbSNP
rs552745212 1207 dbSNP
rs1379567063 1210 dbSNP
rs898085908 1211 dbSNP
rs1472322832 1212 dbSNP
rs752603875 1214 dbSNP
rs1427587391 1217 dbSNP
rs1167048400 1219 dbSNP
rs1402628916 1221 dbSNP
rs1295871379 1226 dbSNP
rs115415960 1236 dbSNP
rs894503245 1237 dbSNP
rs73981903 1250 dbSNP
rs113226840 1251 dbSNP
rs1050525213 1255 dbSNP
rs1344862942 1259 dbSNP
rs1225855176 1262 dbSNP
rs907118191 1264 dbSNP
rs931975185 1281 dbSNP
rs1278437692 1289 dbSNP
rs1041519397 1297 dbSNP
rs1202450702 1304 dbSNP
rs1261439893 1304 dbSNP
rs945905810 1304 dbSNP
rs1342494888 1305 dbSNP
rs767919817 1307 dbSNP
rs892885837 1309 dbSNP
rs201990853 1312 dbSNP
rs942359733 1317 dbSNP
rs910856228 1342 dbSNP
rs13014 1343 dbSNP
rs1378035067 1350 dbSNP
rs1467372918 1350 dbSNP
rs747760624 1356 dbSNP
rs1050734191 1361 dbSNP
rs1457319816 1362 dbSNP
rs945946426 1363 dbSNP
rs530456657 1366 dbSNP
rs14003 1367 dbSNP
rs116443325 1368 dbSNP
rs1215004436 1375 dbSNP
rs962561296 1388 dbSNP
rs1295467888 1390 dbSNP
rs1332064282 1394 dbSNP
rs909276691 1396 dbSNP
rs1235830185 1397 dbSNP
rs112995777 1404 dbSNP
rs1310392351 1406 dbSNP
rs75677032 1412 dbSNP
rs1209583932 1414 dbSNP
rs1270167633 1425 dbSNP
rs1484916767 1429 dbSNP
rs984901942 1430 dbSNP
rs1241669525 1440 dbSNP
rs958795919 1446 dbSNP
rs1434722492 1456 dbSNP
rs1329756521 1458 dbSNP
rs1196938053 1464 dbSNP
rs1300815111 1469 dbSNP
rs1387616787 1477 dbSNP
rs979914622 1478 dbSNP
rs112280419 1479 dbSNP
rs1296423375 1480 dbSNP
rs559480059 1482 dbSNP
rs1034312036 1484 dbSNP
rs1342971929 1485 dbSNP
rs189614132 1489 dbSNP
rs1288828930 1491 dbSNP
rs868678819 1495 dbSNP
rs1391996290 1512 dbSNP
rs1160194021 1540 dbSNP
rs1476906378 1545 dbSNP
rs1281840806 1549 dbSNP
rs1345269275 1553 dbSNP
rs1229287086 1554 dbSNP
rs1290425889 1557 dbSNP
rs962262180 1558 dbSNP
rs1238374024 1561 dbSNP
rs1015216454 1570 dbSNP
rs1489455356 1571 dbSNP
rs1376917017 1572 dbSNP
rs879181249 1581 dbSNP
rs1009053020 1582 dbSNP
rs1220149705 1582 dbSNP
rs1483245982 1589 dbSNP
rs971333218 1591 dbSNP
rs76529652 1592 dbSNP
rs1020662010 1593 dbSNP
rs577264760 1611 dbSNP
rs1260336685 1614 dbSNP
rs1427183804 1615 dbSNP
rs996243375 1622 dbSNP
rs1010055692 1625 dbSNP
rs904609475 1629 dbSNP
rs538663133 1639 dbSNP
rs1043039201 1647 dbSNP
rs1410773034 1650 dbSNP
rs1300151042 1654 dbSNP
rs893003915 1655 dbSNP
rs754725160 1656 dbSNP
rs1313611102 1661 dbSNP
rs1323546147 1664 dbSNP
rs563673749 1668 dbSNP
rs543784603 1681 dbSNP
rs574769098 1694 dbSNP
rs1243743077 1701 dbSNP
rs1290880334 1711 dbSNP
rs1342648620 1712 dbSNP
rs1057000762 1714 dbSNP
rs555027988 1715 dbSNP
rs1006568880 1720 dbSNP
rs57606609 1722 dbSNP
rs1194454766 1727 dbSNP
rs1050748514 1731 dbSNP
rs1343293281 1732 dbSNP
rs919686852 1735 dbSNP
rs1172918360 1740 dbSNP
rs1234148602 1745 dbSNP
rs1441801051 1749 dbSNP
rs1347634270 1751 dbSNP
rs553159051 1756 dbSNP
rs1450488516 1757 dbSNP
rs1314298518 1758 dbSNP
rs961057971 1761 dbSNP
rs1216240599 1767 dbSNP
rs539293512 1768 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' gacaccccuGUCUUCCUCCCu 5'
                   | ||:|||||| 
Target 5' ---------CUGAGGGAGGGa 3'
 		1 - 12
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 ENST00000321560.3 | 3UTR | CUGAGGGAGGGAGACCU
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
236 hsa-miR-4667-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT256051 UBE2K ubiquitin conjugating enzyme E2 K 2 4
MIRT306046 SKIL SKI like proto-oncogene 2 10
MIRT348290 ZBTB7A zinc finger and BTB domain containing 7A 2 2
MIRT380488 AREL1 apoptosis resistant E3 ubiquitin protein ligase 1 2 2
MIRT441955 MAGEB10 MAGE family member B10 2 6
MIRT447735 MOCOS molybdenum cofactor sulfurase 2 2
MIRT449260 PALM2 paralemmin 2 2 4
MIRT456108 VAV3 vav guanine nucleotide exchange factor 3 2 8
MIRT471140 PHF19 PHD finger protein 19 2 4
MIRT486256 BCORL1 BCL6 corepressor like 1 2 2
MIRT489562 PLD6 phospholipase D family member 6 2 2
MIRT489898 PPIC peptidylprolyl isomerase C 2 4
MIRT497434 SEC63 SEC63 homolog, protein translocation regulator 2 4
MIRT499611 DNAJA1 DnaJ heat shock protein family (Hsp40) member A1 2 8
MIRT506401 NSD1 nuclear receptor binding SET domain protein 1 2 8
MIRT513021 NSFL1C NSFL1 cofactor 2 6
MIRT513044 BRIX1 BRX1, biogenesis of ribosomes 2 2
MIRT526173 ANKRD65 ankyrin repeat domain 65 2 2
MIRT527820 TMEM74B transmembrane protein 74B 2 2
MIRT528177 C6orf47 chromosome 6 open reading frame 47 2 2
MIRT530306 TNFRSF10D TNF receptor superfamily member 10d 2 2
MIRT531943 AACS acetoacetyl-CoA synthetase 2 2
MIRT531987 SLCO1B3 solute carrier organic anion transporter family member 1B3 2 2
MIRT534821 RAB30 RAB30, member RAS oncogene family 2 2
MIRT536153 MAP4K5 mitogen-activated protein kinase kinase kinase kinase 5 2 2
MIRT540297 TMA16 translation machinery associated 16 homolog 2 2
MIRT543485 RXRA retinoid X receptor alpha 2 2
MIRT547506 MAZ MYC associated zinc finger protein 2 2
MIRT569289 SLC35C2 solute carrier family 35 member C2 2 2
MIRT572754 FAM204A family with sequence similarity 204 member A 2 2
MIRT575266 Timp3 tissue inhibitor of metalloproteinase 3 2 2
MIRT609477 LSAMP limbic system-associated membrane protein 2 2
MIRT610265 LRRC47 leucine rich repeat containing 47 2 2
MIRT610350 AGTRAP angiotensin II receptor associated protein 2 2
MIRT610396 FOXE1 forkhead box E1 2 2
MIRT610492 GPC4 glypican 4 2 4
MIRT612511 SH3PXD2A SH3 and PX domains 2A 2 2
MIRT612760 MYOCD myocardin 2 2
MIRT613414 CDH8 cadherin 8 2 2
MIRT613703 QPRT quinolinate phosphoribosyltransferase 2 2
MIRT613814 ATP6AP1L ATPase H+ transporting accessory protein 1 like 2 2
MIRT614170 MYO1F myosin IF 2 2
MIRT614214 LENG9 leukocyte receptor cluster member 9 2 2
MIRT614225 TSKU tsukushi, small leucine rich proteoglycan 2 2
MIRT614497 RHOB ras homolog family member B 2 2
MIRT614986 GIPC1 GIPC PDZ domain containing family member 1 2 2
MIRT615222 ARSE arylsulfatase E (chondrodysplasia punctata 1) 2 2
MIRT615326 ERN1 endoplasmic reticulum to nucleus signaling 1 2 2
MIRT615494 SHB SH2 domain containing adaptor protein B 2 2
MIRT615506 CNNM3 cyclin and CBS domain divalent metal cation transport mediator 3 2 2
MIRT615536 PHF1 PHD finger protein 1 2 2
MIRT615550 TNFSF15 TNF superfamily member 15 2 2
MIRT615954 SORD sorbitol dehydrogenase 2 2
MIRT616478 MACC1 MACC1, MET transcriptional regulator 2 2
MIRT616667 ST3GAL1 ST3 beta-galactoside alpha-2,3-sialyltransferase 1 2 2
MIRT616742 DCTN5 dynactin subunit 5 2 2
MIRT616760 SVOP SV2 related protein 2 2
MIRT616913 LINC00598 long intergenic non-protein coding RNA 598 2 2
MIRT617645 RAB43 RAB43, member RAS oncogene family 2 2
MIRT617822 EMX2 empty spiracles homeobox 2 2 2
MIRT618468 GPR55 G protein-coupled receptor 55 2 2
MIRT618517 SELPLG selectin P ligand 2 2
MIRT618687 DVL1 dishevelled segment polarity protein 1 2 2
MIRT619464 XRCC2 X-ray repair cross complementing 2 2 2
MIRT619560 GABRG2 gamma-aminobutyric acid type A receptor gamma2 subunit 2 2
MIRT620004 C1orf64 steroid receptor associated and regulated protein 2 2
MIRT620210 VN1R1 vomeronasal 1 receptor 1 2 2
MIRT620446 SEMA3E semaphorin 3E 2 2
MIRT621297 SLC35B1 solute carrier family 35 member B1 2 2
MIRT621765 TNFAIP3 TNF alpha induced protein 3 2 2
MIRT621812 TMEM170B transmembrane protein 170B 2 2
MIRT622171 SMYD1 SET and MYND domain containing 1 2 2
MIRT622202 SLC5A12 solute carrier family 5 member 12 2 2
MIRT622295 SH3BP5L SH3 binding domain protein 5 like 2 2
MIRT622718 PLEKHA2 pleckstrin homology domain containing A2 2 2
MIRT622893 PDCL phosducin like 2 2
MIRT623215 MTFR1L mitochondrial fission regulator 1 like 2 2
MIRT623230 MON1B MON1 homolog B, secretory trafficking associated 2 2
MIRT623548 KCNJ6 potassium voltage-gated channel subfamily J member 6 2 2
MIRT623557 JPH3 junctophilin 3 2 2
MIRT623669 HRK harakiri, BCL2 interacting protein 2 2
MIRT623730 GTDC1 glycosyltransferase like domain containing 1 2 4
MIRT623742 GRIN2B glutamate ionotropic receptor NMDA type subunit 2B 2 2
MIRT623906 FOXK2 forkhead box K2 2 2
MIRT624181 DERL2 derlin 2 2 2
MIRT625758 GPC5 glypican 5 2 2
MIRT625975 PIK3C2B phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 beta 2 2
MIRT626300 KCNK12 potassium two pore domain channel subfamily K member 12 2 2
MIRT626779 PI4K2B phosphatidylinositol 4-kinase type 2 beta 2 2
MIRT627034 TMEM109 transmembrane protein 109 2 4
MIRT627109 PDRG1 p53 and DNA damage regulated 1 2 2
MIRT627405 TMEM170A transmembrane protein 170A 2 2
MIRT628390 CACNB2 calcium voltage-gated channel auxiliary subunit beta 2 2 2
MIRT628428 ARRB1 arrestin beta 1 2 2
MIRT629824 REL REL proto-oncogene, NF-kB subunit 2 2
MIRT630870 UBXN11 UBX domain protein 11 2 2
MIRT630968 KIAA2022 neurite extension and migration factor 2 2
MIRT631588 ITGAL integrin subunit alpha L 2 2
MIRT633209 WFDC6 WAP four-disulfide core domain 6 2 2
MIRT635310 FAM179A TOG array regulator of axonemal microtubules 2 2 2
MIRT637062 PRKAG1 protein kinase AMP-activated non-catalytic subunit gamma 1 2 2
MIRT637116 KLHL21 kelch like family member 21 2 2
MIRT637635 ZNF431 zinc finger protein 431 2 2
MIRT638390 RAB11FIP1 RAB11 family interacting protein 1 2 2
MIRT639178 CEP70 centrosomal protein 70 2 2
MIRT639777 GPR45 G protein-coupled receptor 45 2 2
MIRT639885 STC1 stanniocalcin 1 2 2
MIRT640003 PHF21B PHD finger protein 21B 2 2
MIRT640640 FBXL18 F-box and leucine rich repeat protein 18 2 2
MIRT640824 GPR107 G protein-coupled receptor 107 2 2
MIRT641253 CENPN centromere protein N 2 2
MIRT641434 SCUBE3 signal peptide, CUB domain and EGF like domain containing 3 2 2
MIRT641746 MACROD2 MACRO domain containing 2 2 2
MIRT641869 STOML1 stomatin like 1 2 2
MIRT641890 SND1 staphylococcal nuclease and tudor domain containing 1 2 2
MIRT642356 C19orf40 Fanconi anemia core complex associated protein 24 1 1
MIRT644007 PPP1R3G protein phosphatase 1 regulatory subunit 3G 2 2
MIRT644301 ZSCAN29 zinc finger and SCAN domain containing 29 2 2
MIRT645706 C1orf50 chromosome 1 open reading frame 50 2 2
MIRT645752 FAM213A family with sequence similarity 213 member A 2 2
MIRT646123 SLC26A9 solute carrier family 26 member 9 2 2
MIRT646397 SLC22A6 solute carrier family 22 member 6 2 2
MIRT646490 APBB3 amyloid beta precursor protein binding family B member 3 2 2
MIRT646576 XPNPEP3 X-prolyl aminopeptidase 3 2 2
MIRT647151 CYP27C1 cytochrome P450 family 27 subfamily C member 1 2 2
MIRT647554 CYP2B6 cytochrome P450 family 2 subfamily B member 6 2 2
MIRT647761 RNF168 ring finger protein 168 2 2
MIRT648078 ZMIZ2 zinc finger MIZ-type containing 2 2 2
MIRT648644 ZNF562 zinc finger protein 562 2 2
MIRT648967 TMEM45B transmembrane protein 45B 2 2
MIRT649126 SRD5A1 steroid 5 alpha-reductase 1 2 2
MIRT649556 FAM20B FAM20B, glycosaminoglycan xylosylkinase 2 2
MIRT649644 SAMHD1 SAM and HD domain containing deoxynucleoside triphosphate triphosphohydrolase 1 2 2
MIRT649781 MRPS27 mitochondrial ribosomal protein S27 2 4
MIRT649945 SIT1 signaling threshold regulating transmembrane adaptor 1 2 2
MIRT649975 TRAFD1 TRAF-type zinc finger domain containing 1 2 2
MIRT650250 CD68 CD68 molecule 2 2
MIRT650717 KRT32 keratin 32 2 2
MIRT650979 ZNF831 zinc finger protein 831 2 2
MIRT651049 ZNF644 zinc finger protein 644 2 2
MIRT651120 ZNF48 zinc finger protein 48 2 2
MIRT651221 ZNF225 zinc finger protein 225 2 2
MIRT651277 ZDHHC5 zinc finger DHHC-type containing 5 2 2
MIRT651401 ZBTB16 zinc finger and BTB domain containing 16 2 2
MIRT651410 ZADH2 zinc binding alcohol dehydrogenase domain containing 2 2 2
MIRT652198 TRIM39 tripartite motif containing 39 2 2
MIRT652710 THBS2 thrombospondin 2 2 4
MIRT652763 TENM4 teneurin transmembrane protein 4 2 2
MIRT653031 STX1B syntaxin 1B 2 2
MIRT653099 SRSF7 serine and arginine rich splicing factor 7 2 2
MIRT653354 SMG7 SMG7, nonsense mediated mRNA decay factor 2 2
MIRT653366 SMARCE1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1 2 2
MIRT653755 SLC12A5 solute carrier family 12 member 5 2 2
MIRT653864 SHANK2 SH3 and multiple ankyrin repeat domains 2 2 2
MIRT653961 SEPN1 selenoprotein N 2 2
MIRT654463 RAP2B RAP2B, member of RAS oncogene family 2 2
MIRT654483 RANBP2 RAN binding protein 2 2 2
MIRT654696 PSMB5 proteasome subunit beta 5 2 2
MIRT655075 PIP4K2B phosphatidylinositol-5-phosphate 4-kinase type 2 beta 2 2
MIRT655443 PALM2-AKAP2 PALM2-AKAP2 readthrough 2 2
MIRT655606 ORMDL3 ORMDL sphingolipid biosynthesis regulator 3 2 2
MIRT656026 MYO5A myosin VA 2 4
MIRT656038 MYO10 myosin X 2 2
MIRT656304 METTL1 methyltransferase like 1 2 2
MIRT656372 MDFI MyoD family inhibitor 2 4
MIRT656399 MCU mitochondrial calcium uniporter 2 2
MIRT656415 MCTP1 multiple C2 and transmembrane domain containing 1 2 2
MIRT656762 LCOR ligand dependent nuclear receptor corepressor 2 2
MIRT656905 KIAA1958 KIAA1958 2 2
MIRT658938 DPY19L1 dpy-19 like C-mannosyltransferase 1 2 2
MIRT659221 CXXC5 CXXC finger protein 5 2 2
MIRT659281 CTIF cap binding complex dependent translation initiation factor 2 2
MIRT659483 CLDN1 claudin 1 2 2
MIRT660112 BTBD3 BTB domain containing 3 2 2
MIRT660305 BHLHE40 basic helix-loop-helix family member e40 2 2
MIRT660334 BCL11B B-cell CLL/lymphoma 11B 2 2
MIRT660788 AKAP2 A-kinase anchoring protein 2 2 2
MIRT661578 EPHX2 epoxide hydrolase 2 2 2
MIRT661744 DTHD1 death domain containing 1 2 2
MIRT661873 PDLIM5 PDZ and LIM domain 5 2 2
MIRT662256 C15orf52 chromosome 15 open reading frame 52 2 2
MIRT662698 SPIRE2 spire type actin nucleation factor 2 2 2
MIRT662761 LRRC3C leucine rich repeat containing 3C 2 2
MIRT663315 TECPR2 tectonin beta-propeller repeat containing 2 2 2
MIRT664687 EIF2B2 eukaryotic translation initiation factor 2B subunit beta 2 4
MIRT665966 SZRD1 SUZ RNA binding domain containing 1 2 2
MIRT666057 STK40 serine/threonine kinase 40 2 2
MIRT666875 POMGNT1 protein O-linked mannose N-acetylglucosaminyltransferase 1 (beta 1,2-) 2 2
MIRT667214 NIPAL1 NIPA like domain containing 1 2 2
MIRT667285 NAV1 neuron navigator 1 2 2
MIRT667648 LGALSL galectin like 2 2
MIRT668045 GTPBP10 GTP binding protein 10 2 2
MIRT668155 GDE1 glycerophosphodiester phosphodiesterase 1 2 2
MIRT668492 ETV3 ETS variant 3 2 2
MIRT669356 BHLHE22 basic helix-loop-helix family member e22 2 2
MIRT676486 DSN1 DSN1 homolog, MIS12 kinetochore complex component 2 2
MIRT684285 CDK9 cyclin dependent kinase 9 2 2
MIRT686689 TIMM10 translocase of inner mitochondrial membrane 10 2 2
MIRT691270 GET4 golgi to ER traffic protein 4 2 2
MIRT698669 TEF TEF, PAR bZIP transcription factor 2 2
MIRT699893 RUNX1 runt related transcription factor 1 2 2
MIRT702635 ITGA5 integrin subunit alpha 5 2 2
MIRT708797 KIFC3 kinesin family member C3 2 2
MIRT710950 AMZ1 archaelysin family metallopeptidase 1 2 2
MIRT711228 RETSAT retinol saturase 2 2
MIRT711637 PEBP1 phosphatidylethanolamine binding protein 1 2 2
MIRT711968 APOA5 apolipoprotein A5 2 2
MIRT712078 WDR37 WD repeat domain 37 2 2
MIRT712542 CYB561D1 cytochrome b561 family member D1 2 2
MIRT713595 ANKMY1 ankyrin repeat and MYND domain containing 1 2 2
MIRT713715 PAOX polyamine oxidase 2 2
MIRT714482 TBL2 transducin beta like 2 2 2
MIRT715510 MAPKBP1 mitogen-activated protein kinase binding protein 1 2 2
MIRT715833 SZT2 SZT2, KICSTOR complex subunit 2 2
MIRT715931 CHD4 chromodomain helicase DNA binding protein 4 2 2
MIRT716183 MTRNR2L1 MT-RNR2-like 1 2 2
MIRT716330 POU5F1 POU class 5 homeobox 1 2 2
MIRT716942 CACNB1 calcium voltage-gated channel auxiliary subunit beta 1 2 2
MIRT717337 URM1 ubiquitin related modifier 1 2 2
MIRT718114 CRTC1 CREB regulated transcription coactivator 1 2 2
MIRT718866 LRSAM1 leucine rich repeat and sterile alpha motif containing 1 2 2
MIRT719456 APBA1 amyloid beta precursor protein binding family A member 1 2 2
MIRT719989 MAPK1 mitogen-activated protein kinase 1 2 2
MIRT720262 FAM83F family with sequence similarity 83 member F 2 2
MIRT721361 ENTHD1 ENTH domain containing 1 2 2
MIRT721370 SEC14L6 SEC14 like lipid binding 6 2 2
MIRT721489 LTB4R2 leukotriene B4 receptor 2 2 2
MIRT723010 FADS1 fatty acid desaturase 1 2 2
MIRT723608 FKRP fukutin related protein 2 2
MIRT723686 CIRH1A UTP4, small subunit processome component 2 2
MIRT723972 GPR146 G protein-coupled receptor 146 2 2
MIRT724826 HOXB8 homeobox B8 2 2
MIRT725283 OSTM1 osteopetrosis associated transmembrane protein 1 2 2
MIRT725437 HIVEP3 human immunodeficiency virus type I enhancer binding protein 3 2 2
MIRT725606 CAPN6 calpain 6 2 2
MIRT731686 BTK Bruton tyrosine kinase 3 1
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-4667 Cisplatin 5460033 NSC119875 approved sensitive cell line (CIS)
hsa-mir-4667 Androstenedione 6128 NSC9563 resistant cell line (MCF-7)
hsa-mir-4667 Tamoxifen 2733525 NSC180973 approved resistant cell line (MCF7)
hsa-miR-4667-3p Tripterygium wilfordii Hook F sensitive tissue
hsa-miR-4667-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-4667-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (CP20)
hsa-miR-4667-3p Platinum 23939 sensitive tissue (non-small cell lung cancer)
hsa-miR-4667-3p Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (1500 ng/ml)
hsa-miR-4667-3p Ceritinib 57379345 NSC776422 approved resistant cell line (H3122)

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