miRTarBase - #MIRT496523


—
pre-miRNA Information
pre-miRNA hsa-mir-4672   
Genomic Coordinates chr9: 127869415 - 127869495
Description Homo sapiens miR-4672 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4672
Sequence 51| UUACACAGCUGGACAGAGGCA |71
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1234304182 2 dbSNP
rs1012722802 6 dbSNP
rs1212523496 9 dbSNP
rs1027978850 10 dbSNP
rs1212553533 14 dbSNP
rs895240447 18 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol ID2   
Synonyms GIG8, ID2A, ID2H, bHLHb26
Description inhibitor of DNA binding 2, HLH protein
Transcript NM_002166   
Expression
Putative miRNA Targets on ID2
3'UTR of ID2
(miRNA target sites are highlighted)		 
>ID2|NM_002166|3'UTR
   1 ATAAGCGGTGTTCATGATTTCTTTTATTCTTTGCACAACAACAACAACAACAAATTCACGGAATCTTTTAAGTGCTGAAC
  81 TTATTTTTCAACCATTTCACAAGGAGGACAAGTTGAATGGACCTTTTTAAAAAGAAAAAAAAAATGGAAGGAAAACTAAG
 161 AATGATCATCTTCCCAGGGTGTTCTCTTACTTGGACTGTGATATTCGTTATTTATGAAAAAGACTTTTAAATGCCCTTTC
 241 TGCAGTTGGAAGGTTTTCTTTATATACTATTCCCACCATGGGGAGCGAAAACGTTAAAATCACAAGGAATTGCCCAATCT
 321 AAGCAGACTTTGCCTTTTTTCAAAGGTGGAGCGTGAATACCAGAAGGATCCAGTATTCAGTCACTTAAATGAAGTCTTTT
 401 GGTCAGAAATTACCTTTTTGACACAAGCCTACTGAATGCTGTGTATATATTTATATATAAATATATCTATTTGAGTGAAA
 481 CCTTGTGAACTCTTTAATTAGAGTTTTCTTGTATAGTGGCAGAGATGTCTATTTCTGCATTCAAAAGTGTAATGATGTAC
 561 TTATTCATGCTAAACTTTTTATAAAAGTTTAGTTGTAAACTTAACCCTTTTATACAAAATAAATCAAGTGTGTTTATTGA
 641 ATGGTGATTGCCTGCTTTATTTCAGAGGACCAGTGCTTTGATTTTTATTATGCTATGTTATAACTGAACCCAAATAAATA
 721 CAAGTTCAAATTTATGTAGACTGTATAAGATTATAATAAAACATGTCTGAAGTCAAAAAAAAAAAAAAAAAAAAAAAAAA
 801 AAAAAAAAAAAAAA
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' acGGA-GACAGGUCGACACAUu 5'
            ||| |||  : |||||||| 
Target 5' agCCTACTGAAT-GCTGTGTAt 3'
 426 - 446 154.00 -19.50
2 
miRNA  3' acGGAGACAGGUC--GACAC-AUu 5'
            :||||  |: |  ||||| || 
Target 5' gtTCTCTTACTTGGACTGTGATAt 3'
 181 - 204 121.00 -9.44
3 
miRNA  3' acggAGACAGGUC-GACACAUu 5'
              |:| | :|| |||| || 
Target 5' caaaTTTATGTAGACTGTATAa 3'
 727 - 748 121.00 -5.40
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN26963858 12 COSMIC
COSN19692034 51 COSMIC
COSN24390826 58 COSMIC
COSN8609803 60 COSMIC
COSN20040438 62 COSMIC
COSN26979581 69 COSMIC
COSN23093779 82 COSMIC
COSN25100250 85 COSMIC
COSN19631115 135 COSMIC
COSN23754549 193 COSMIC
COSN15965570 253 COSMIC
COSN1861785 485 COSMIC
COSN29985790 600 COSMIC
COSN21571400 628 COSMIC
COSN1243885 827 COSMIC
COSN27260503 923 COSMIC
COSN31570567 980 COSMIC
COSN31485551 1175 COSMIC
COSN31577188 1325 COSMIC
COSN31542932 1429 COSMIC
COSN31595056 1446 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs545689941 2 dbSNP
rs745768418 4 dbSNP
rs1163767410 5 dbSNP
rs755701807 6 dbSNP
rs777266112 7 dbSNP
rs1418560989 8 dbSNP
rs757859222 13 dbSNP
rs1178509202 14 dbSNP
rs748895574 15 dbSNP
rs756708598 16 dbSNP
rs779522291 17 dbSNP
rs1413934835 19 dbSNP
rs377037800 20 dbSNP
rs564886395 23 dbSNP
rs1027875438 27 dbSNP
rs979385018 29 dbSNP
rs1269176740 30 dbSNP
rs1251144645 32 dbSNP
rs1340311364 33 dbSNP
rs935346820 36 dbSNP
rs951043696 40 dbSNP
rs775949491 43 dbSNP
rs368596105 44 dbSNP
rs372282921 45 dbSNP
rs917830703 47 dbSNP
rs779547144 48 dbSNP
rs960481095 48 dbSNP
rs527701869 49 dbSNP
rs746495103 49 dbSNP
rs768347512 50 dbSNP
rs762013661 52 dbSNP
rs1284651842 53 dbSNP
rs374104552 56 dbSNP
rs1196504357 57 dbSNP
rs1393369344 58 dbSNP
rs200036190 58 dbSNP
rs3053671 58 dbSNP
rs369815857 58 dbSNP
rs898225672 58 dbSNP
rs533546964 60 dbSNP
rs540323460 61 dbSNP
rs777580956 62 dbSNP
rs1437447713 64 dbSNP
rs1182635501 75 dbSNP
rs1203558653 75 dbSNP
rs530261721 82 dbSNP
rs1234605471 84 dbSNP
rs374163542 87 dbSNP
rs886737541 88 dbSNP
rs923840855 91 dbSNP
rs769109978 93 dbSNP
rs1228587586 99 dbSNP
rs1019189405 100 dbSNP
rs902126096 102 dbSNP
rs1053117105 104 dbSNP
rs996347688 108 dbSNP
rs1402678900 117 dbSNP
rs890478695 124 dbSNP
rs774807155 125 dbSNP
rs1374812775 128 dbSNP
rs140172462 132 dbSNP
rs80280742 135 dbSNP
rs1410129511 138 dbSNP
rs1330317236 139 dbSNP
rs532260886 144 dbSNP
rs1484893473 145 dbSNP
rs868608897 146 dbSNP
rs1206423979 147 dbSNP
rs1283904720 148 dbSNP
rs1028242335 149 dbSNP
rs1340745956 150 dbSNP
rs1314390961 151 dbSNP
rs552524818 157 dbSNP
rs950995986 160 dbSNP
rs1347315944 162 dbSNP
rs565648612 163 dbSNP
rs534587167 164 dbSNP
rs1398756344 168 dbSNP
rs1269315425 172 dbSNP
rs1034679213 178 dbSNP
rs917834850 179 dbSNP
rs1190314141 180 dbSNP
rs960384405 183 dbSNP
rs1257171610 184 dbSNP
rs990505060 185 dbSNP
rs1023362097 186 dbSNP
rs967792557 187 dbSNP
rs554635392 196 dbSNP
rs1489893262 204 dbSNP
rs1274681633 210 dbSNP
rs113690930 213 dbSNP
rs935248954 216 dbSNP
rs987143777 218 dbSNP
rs568157668 222 dbSNP
rs766497047 224 dbSNP
rs1481700427 231 dbSNP
rs1333951741 234 dbSNP
rs931142207 235 dbSNP
rs1046807447 242 dbSNP
rs1167377810 247 dbSNP
rs769849495 252 dbSNP
rs1417616467 259 dbSNP
rs1160431864 260 dbSNP
rs1362631366 263 dbSNP
rs1181651235 264 dbSNP
rs886895694 270 dbSNP
rs943676347 271 dbSNP
rs1041139366 276 dbSNP
rs1268338005 278 dbSNP
rs1225318570 280 dbSNP
rs537189047 283 dbSNP
rs900557886 290 dbSNP
rs1233798468 291 dbSNP
rs551458222 295 dbSNP
rs1049223708 297 dbSNP
rs1481361965 300 dbSNP
rs1050713653 301 dbSNP
rs866508539 302 dbSNP
rs1394074132 304 dbSNP
rs886637954 305 dbSNP
rs903998981 310 dbSNP
rs1406160629 313 dbSNP
rs1158532361 318 dbSNP
rs1000993532 319 dbSNP
rs1478616733 319 dbSNP
rs1005116834 321 dbSNP
rs577345215 330 dbSNP
rs1453265807 333 dbSNP
rs187316081 336 dbSNP
rs956822703 338 dbSNP
rs1169237817 339 dbSNP
rs1013568963 350 dbSNP
rs1382981457 351 dbSNP
rs192214854 354 dbSNP
rs969426577 355 dbSNP
rs546393647 356 dbSNP
rs1011885691 359 dbSNP
rs1232261438 360 dbSNP
rs1367386574 366 dbSNP
rs1023344344 368 dbSNP
rs919843243 371 dbSNP
rs967781290 377 dbSNP
rs1318137050 380 dbSNP
rs759504861 385 dbSNP
rs1229307840 387 dbSNP
rs1424149435 388 dbSNP
rs1172302806 392 dbSNP
rs74467097 395 dbSNP
rs183093556 397 dbSNP
rs1474194442 398 dbSNP
rs185992340 398 dbSNP
rs1245417809 399 dbSNP
rs1241133704 405 dbSNP
rs1292520488 407 dbSNP
rs558838352 409 dbSNP
rs764892512 412 dbSNP
rs920900762 429 dbSNP
rs1209996240 431 dbSNP
rs912443210 434 dbSNP
rs942625258 438 dbSNP
rs974713503 440 dbSNP
rs752549429 441 dbSNP
rs371845381 444 dbSNP
rs562999827 444 dbSNP
rs1447986937 446 dbSNP
rs930718289 446 dbSNP
rs763083758 456 dbSNP
rs1195741946 460 dbSNP
rs1357695011 461 dbSNP
rs1311598478 465 dbSNP
rs374952354 470 dbSNP
rs1052581856 473 dbSNP
rs572438956 473 dbSNP
rs541003847 474 dbSNP
rs190266143 476 dbSNP
rs367570821 478 dbSNP
rs1418429122 480 dbSNP
rs1163463627 481 dbSNP
rs1476071578 483 dbSNP
rs34945847 484 dbSNP
rs80204205 484 dbSNP
rs543900939 485 dbSNP
rs1163668601 488 dbSNP
rs1187166101 491 dbSNP
rs757924221 493 dbSNP
rs182538570 495 dbSNP
rs768832154 503 dbSNP
rs1451569343 504 dbSNP
rs1157974043 505 dbSNP
rs1234060482 507 dbSNP
rs1385536392 512 dbSNP
rs896737044 517 dbSNP
rs952634682 519 dbSNP
rs2306067 525 dbSNP
rs1439460031 526 dbSNP
rs1353352705 528 dbSNP
rs1326171181 530 dbSNP
rs1415184480 532 dbSNP
rs908353260 532 dbSNP
rs369020462 536 dbSNP
rs1164006076 538 dbSNP
rs1453376094 547 dbSNP
rs1410147617 554 dbSNP
rs1175352513 557 dbSNP
rs1023293356 558 dbSNP
rs1479702148 566 dbSNP
rs552438486 569 dbSNP
rs1214578368 570 dbSNP
rs1000553136 572 dbSNP
rs1470031423 574 dbSNP
rs1271474343 580 dbSNP
rs1031137240 586 dbSNP
rs956488788 587 dbSNP
rs1452109598 589 dbSNP
rs1309798685 593 dbSNP
rs188226977 594 dbSNP
rs976874084 596 dbSNP
rs1315863752 598 dbSNP
rs1442432184 606 dbSNP
rs1008435546 613 dbSNP
rs557273414 614 dbSNP
rs1323530680 622 dbSNP
rs1236947941 623 dbSNP
rs921027735 625 dbSNP
rs192510893 627 dbSNP
rs1210984457 634 dbSNP
rs1156877315 635 dbSNP
rs1042740438 637 dbSNP
rs1395586547 650 dbSNP
rs1194388659 656 dbSNP
rs1455638930 668 dbSNP
rs1251429423 671 dbSNP
rs963923171 672 dbSNP
rs925527269 673 dbSNP
rs1213233227 677 dbSNP
rs182750881 684 dbSNP
rs975332466 697 dbSNP
rs921921179 699 dbSNP
rs55760294 700 dbSNP
rs1364373794 701 dbSNP
rs1347501372 709 dbSNP
rs551653984 714 dbSNP
rs1304808863 715 dbSNP
rs1046914887 716 dbSNP
rs905310373 717 dbSNP
rs1302242807 718 dbSNP
rs984822846 719 dbSNP
rs907918934 722 dbSNP
rs1469503549 724 dbSNP
rs940789975 724 dbSNP
rs1363844286 727 dbSNP
rs1286950264 728 dbSNP
rs1452744161 731 dbSNP
rs560855290 733 dbSNP
rs1056637237 737 dbSNP
rs1175424174 741 dbSNP
rs1436671660 741 dbSNP
rs918117198 747 dbSNP
rs1198460091 751 dbSNP
rs780383502 753 dbSNP
rs1004104885 757 dbSNP
rs1488162963 760 dbSNP
rs1389816015 763 dbSNP
rs1281683882 769 dbSNP
rs1213565344 770 dbSNP
rs568055526 773 dbSNP
rs1306308358 774 dbSNP
rs1308932479 775 dbSNP
rs536697369 781 dbSNP
rs1292990797 783 dbSNP
rs1336874311 794 dbSNP
rs188919269 796 dbSNP
rs1045317809 798 dbSNP
rs1261685324 800 dbSNP
rs904115166 804 dbSNP
rs1323331740 807 dbSNP
rs1204672217 809 dbSNP
rs1000903246 811 dbSNP
rs1462561808 812 dbSNP
rs1028484617 813 dbSNP
rs1258607898 813 dbSNP
rs778021904 813 dbSNP
rs965547270 813 dbSNP
rs1479444963 815 dbSNP
rs953850632 817 dbSNP
rs1485006455 824 dbSNP
rs1256030190 828 dbSNP
rs1195941303 833 dbSNP
rs570115222 834 dbSNP
rs978380833 839 dbSNP
rs925591279 840 dbSNP
rs1217558720 843 dbSNP
rs934334335 844 dbSNP
rs1294842700 851 dbSNP
rs192378104 853 dbSNP
rs1052108387 855 dbSNP
rs184340832 856 dbSNP
rs1392053876 858 dbSNP
rs1398644039 859 dbSNP
rs1296700178 862 dbSNP
rs1428490384 863 dbSNP
rs949575603 871 dbSNP
rs1474427923 872 dbSNP
rs1008012963 873 dbSNP
rs1480663594 875 dbSNP
rs1368453111 882 dbSNP
rs1183093037 883 dbSNP
rs1166018973 885 dbSNP
rs1178318683 893 dbSNP
rs1019395591 896 dbSNP
rs963872738 897 dbSNP
rs1197646394 900 dbSNP
rs780962060 902 dbSNP
rs1460596655 907 dbSNP
rs1468679986 909 dbSNP
rs1274661019 912 dbSNP
rs1211653779 913 dbSNP
rs371946564 913 dbSNP
rs879061437 913 dbSNP
rs1297710132 920 dbSNP
rs1241047879 923 dbSNP
rs768679525 924 dbSNP
rs1305021615 926 dbSNP
rs938086943 928 dbSNP
rs1048524634 934 dbSNP
rs1328153079 937 dbSNP
rs1411716086 944 dbSNP
rs1281969736 946 dbSNP
rs187229888 948 dbSNP
rs756804161 949 dbSNP
rs1224569017 951 dbSNP
rs767246383 953 dbSNP
rs1392814821 954 dbSNP
rs1362540944 956 dbSNP
rs1004219198 959 dbSNP
rs1303784973 963 dbSNP
rs1454324110 969 dbSNP
rs1254511749 974 dbSNP
rs1211367659 976 dbSNP
rs1305410826 978 dbSNP
rs557173478 981 dbSNP
rs952668295 983 dbSNP
rs1251409867 986 dbSNP
rs1284635800 989 dbSNP
rs1206652131 991 dbSNP
rs1285212823 995 dbSNP
rs985157317 995 dbSNP
rs1015519316 997 dbSNP
rs1219582584 1001 dbSNP
rs1268180334 1003 dbSNP
rs1434527112 1010 dbSNP
rs750306186 1014 dbSNP
rs907902843 1014 dbSNP
rs962425103 1015 dbSNP
rs541335646 1019 dbSNP
rs1402769984 1025 dbSNP
rs1383510189 1030 dbSNP
rs1158515610 1045 dbSNP
rs992266908 1047 dbSNP
rs760542686 1048 dbSNP
rs948171539 1049 dbSNP
rs1426984585 1050 dbSNP
rs1477520846 1057 dbSNP
rs1242309579 1059 dbSNP
rs1045263841 1061 dbSNP
rs1802549 1062 dbSNP
rs1170068080 1065 dbSNP
rs1802550 1067 dbSNP
rs1195149507 1085 dbSNP
rs901125964 1086 dbSNP
rs998416099 1094 dbSNP
rs925485420 1095 dbSNP
rs780888490 1096 dbSNP
rs1052525078 1098 dbSNP
rs1217523587 1103 dbSNP
rs978446044 1107 dbSNP
rs1301353993 1113 dbSNP
rs892162200 1122 dbSNP
rs561735228 1126 dbSNP
rs574798390 1132 dbSNP
rs1298153548 1139 dbSNP
rs1415889801 1140 dbSNP
rs955700680 1142 dbSNP
rs988470415 1145 dbSNP
rs1295688493 1149 dbSNP
rs755302298 1156 dbSNP
rs1169226857 1158 dbSNP
rs1474304694 1161 dbSNP
rs140487184 1165 dbSNP
rs543520892 1165 dbSNP
rs1188598327 1167 dbSNP
rs1214331964 1168 dbSNP
rs1295901120 1172 dbSNP
rs914126176 1175 dbSNP
rs1040749488 1181 dbSNP
rs1441857923 1183 dbSNP
rs1273981716 1192 dbSNP
rs1216509672 1193 dbSNP
rs949684920 1193 dbSNP
rs982788644 1193 dbSNP
rs926783899 1197 dbSNP
rs938169886 1203 dbSNP
rs1290327760 1205 dbSNP
rs899605677 1207 dbSNP
rs1354546338 1208 dbSNP
rs527712287 1210 dbSNP
rs1048470546 1218 dbSNP
rs1463686407 1224 dbSNP
rs996601385 1227 dbSNP
rs1422443638 1228 dbSNP
rs1026778380 1230 dbSNP
rs888359269 1234 dbSNP
rs1165429571 1235 dbSNP
rs868005555 1237 dbSNP
rs1476061851 1238 dbSNP
rs577807398 1240 dbSNP
rs939998187 1241 dbSNP
rs1037066212 1242 dbSNP
rs1233479164 1242 dbSNP
rs1485444558 1243 dbSNP
rs1456643878 1246 dbSNP
rs1337328912 1250 dbSNP
rs901069258 1250 dbSNP
rs1311210075 1260 dbSNP
rs1186880253 1261 dbSNP
rs1373450611 1269 dbSNP
rs1280833139 1271 dbSNP
rs56114166 1272 dbSNP
rs748235392 1272 dbSNP
rs1326149588 1274 dbSNP
rs1399177899 1274 dbSNP
rs1462824280 1274 dbSNP
rs1347863457 1277 dbSNP
rs1164023747 1278 dbSNP
rs998091229 1278 dbSNP
rs1451494447 1281 dbSNP
rs1161752417 1286 dbSNP
rs1410036694 1287 dbSNP
rs371228469 1290 dbSNP
rs1406487133 1294 dbSNP
rs192055392 1306 dbSNP
rs1167590771 1308 dbSNP
rs56392909 1308 dbSNP
rs1050114924 1312 dbSNP
rs1470131223 1314 dbSNP
rs1263993416 1319 dbSNP
rs577296674 1321 dbSNP
rs1318090474 1322 dbSNP
rs992173044 1323 dbSNP
rs563781764 1330 dbSNP
rs889586230 1331 dbSNP
rs1000021926 1339 dbSNP
rs184949920 1340 dbSNP
rs373341223 1341 dbSNP
rs13401658 1342 dbSNP
rs1449961027 1343 dbSNP
rs955818332 1349 dbSNP
rs1454120106 1360 dbSNP
rs1346955563 1368 dbSNP
rs1313763711 1371 dbSNP
rs1417940959 1372 dbSNP
rs1379723126 1373 dbSNP
rs1174517396 1379 dbSNP
rs1382947835 1386 dbSNP
rs1265494279 1399 dbSNP
rs1229505072 1401 dbSNP
rs1191047371 1403 dbSNP
rs1282146086 1404 dbSNP
rs1486389273 1404 dbSNP
rs762424092 1404 dbSNP
rs1009837922 1405 dbSNP
rs1316252314 1416 dbSNP
rs1235810632 1417 dbSNP
rs1310146035 1431 dbSNP
rs1216250713 1434 dbSNP
rs781685596 1439 dbSNP
rs150333363 1441 dbSNP
rs1025027599 1443 dbSNP
rs969462019 1447 dbSNP
rs971484370 1450 dbSNP
rs1399265660 1456 dbSNP
rs1181929141 1460 dbSNP
rs1375966137 1460 dbSNP
rs1313599042 1465 dbSNP
rs1242739426 1466 dbSNP
rs1467644346 1469 dbSNP
rs1376194629 1470 dbSNP
rs1175554022 1472 dbSNP
rs982353060 1472 dbSNP
rs980932018 1474 dbSNP
rs925510168 1475 dbSNP
rs926871010 1477 dbSNP
rs959526220 1483 dbSNP
rs375466228 1484 dbSNP
rs909958590 1490 dbSNP
rs984325448 1490 dbSNP
rs1473191980 1500 dbSNP
rs936908465 1505 dbSNP
rs1183668683 1506 dbSNP
rs1481957712 1515 dbSNP
rs1255058947 1516 dbSNP
rs988436839 1519 dbSNP
rs1400578693 1520 dbSNP
rs56050726 1524 dbSNP
rs1037543763 1525 dbSNP
rs1314632140 1526 dbSNP
rs1397871724 1527 dbSNP
rs922593048 1530 dbSNP
rs943678400 1535 dbSNP
rs147763639 1541 dbSNP
rs899553506 1544 dbSNP
rs932443603 1546 dbSNP
rs1477694090 1549 dbSNP
rs1419231489 1550 dbSNP
rs1197123145 1551 dbSNP
rs1277200611 1552 dbSNP
rs1190144469 1553 dbSNP
rs1421580796 1555 dbSNP
rs1048689180 1557 dbSNP
rs189748725 1558 dbSNP
rs1054240102 1559 dbSNP
rs1004471687 1561 dbSNP
rs527938224 1563 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions LCL-BACD1
Disease MIMAT0019754
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 GSM1020024. RNA binding protein: AGO2. Condition:EBV B95-8-infected ...

- Skalsky RL; Corcoran DL; Gottwein E; Frank et al., 2012, PLoS pathogens.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' acGGA-GACAGGUCGACacauu 5'
            ||| |||  : ||||     
Target 5' -gCCUACUGAAU-GCUG----- 3'
 		1 - 15
Article - Skalsky RL; Corcoran DL; Gottwein E; Frank et al.
- PLoS pathogens, 2012
Epstein-Barr virus (EBV) is a ubiquitous human herpesvirus linked to a number of B cell cancers and lymphoproliferative disorders. During latent infection, EBV expresses 25 viral pre-microRNAs (miRNAs) and induces the expression of specific host miRNAs, such as miR-155 and miR-21, which potentially play a role in viral oncogenesis. To date, only a limited number of EBV miRNA targets have been identified; thus, the role of EBV miRNAs in viral pathogenesis and/or lymphomagenesis is not well defined. Here, we used photoactivatable ribonucleoside-enhanced crosslinking and immunoprecipitation (PAR-CLIP) combined with deep sequencing and computational analysis to comprehensively examine the viral and cellular miRNA targetome in EBV strain B95-8-infected lymphoblastoid cell lines (LCLs). We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs. 24 PAR-CLIP-identified miRNA:3'UTR interactions were confirmed by reporter assays. Our results reveal that EBV miRNAs predominantly target cellular transcripts during latent infection, thereby manipulating the host environment. Furthermore, targets of EBV miRNAs are involved in multiple cellular processes that are directly relevant to viral infection, including innate immunity, cell survival, and cell proliferation. Finally, we present evidence that myc-regulated host miRNAs from the miR-17/92 cluster can regulate latent viral gene expression. This comprehensive survey of the miRNA targetome in EBV-infected B cells represents a key step towards defining the functions of EBV-encoded miRNAs, and potentially, identifying novel therapeutic targets for EBV-associated malignancies.
LinkOut: [PMID: 22291592]
CLIP-seq Support 1 for dataset GSM1020024
Method / RBP PAR-CLIP / AGO2
Cell line / Condition LCL-BACD1 / EBV B95-8-infected, 4-thiouridine, RNase T1
Location of target site ENST00000234091.4 | 3UTR | GCCUACUGAAUGCUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 22291592 / GSE41437
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
126 hsa-miR-4672 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT060585 CCND1 cyclin D1 2 2
MIRT063968 ZNF678 zinc finger protein 678 2 2
MIRT078062 PCTP phosphatidylcholine transfer protein 2 2
MIRT084370 RRM2 ribonucleotide reductase regulatory subunit M2 2 2
MIRT095611 NR3C1 nuclear receptor subfamily 3 group C member 1 2 2
MIRT096511 BRIX1 BRX1, biogenesis of ribosomes 2 4
MIRT121793 GRPEL2 GrpE like 2, mitochondrial 2 2
MIRT129470 CHEK1 checkpoint kinase 1 2 4
MIRT149009 PKN2 protein kinase N2 2 2
MIRT169592 PNRC1 proline rich nuclear receptor coactivator 1 2 2
MIRT177382 WAC WW domain containing adaptor with coiled-coil 2 4
MIRT214659 HNRNPA0 heterogeneous nuclear ribonucleoprotein A0 2 2
MIRT322680 BAG4 BCL2 associated athanogene 4 2 4
MIRT332490 CD81 CD81 molecule 2 6
MIRT338986 CPSF6 cleavage and polyadenylation specific factor 6 2 2
MIRT353814 PCBP1 poly(rC) binding protein 1 2 2
MIRT449368 ANTXR2 anthrax toxin receptor 2 2 2
MIRT459867 KIAA1191 KIAA1191 2 2
MIRT466272 TM9SF3 transmembrane 9 superfamily member 3 2 2
MIRT467049 SRSF1 serine and arginine rich splicing factor 1 2 4
MIRT469925 PTPRJ protein tyrosine phosphatase, receptor type J 2 6
MIRT470361 PPP2R5E protein phosphatase 2 regulatory subunit B'epsilon 2 2
MIRT471076 PIK3C2B phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 beta 2 2
MIRT472472 NAP1L1 nucleosome assembly protein 1 like 1 2 4
MIRT478137 DHX33 DEAH-box helicase 33 2 2
MIRT479414 CDKN1B cyclin dependent kinase inhibitor 1B 2 4
MIRT496523 ID2 inhibitor of DNA binding 2, HLH protein 2 2
MIRT510371 ZNF703 zinc finger protein 703 2 6
MIRT512861 TESK2 testis-specific kinase 2 2 2
MIRT512974 PPP1R14C protein phosphatase 1 regulatory inhibitor subunit 14C 2 4
MIRT513313 ASB6 ankyrin repeat and SOCS box containing 6 2 4
MIRT521882 PITPNC1 phosphatidylinositol transfer protein, cytoplasmic 1 2 4
MIRT522184 NR2C2 nuclear receptor subfamily 2 group C member 2 2 4
MIRT528381 TRAF3IP1 TRAF3 interacting protein 1 2 2
MIRT532412 ART4 ADP-ribosyltransferase 4 (Dombrock blood group) 2 2
MIRT533027 ZBTB5 zinc finger and BTB domain containing 5 2 2
MIRT533438 TRPC5 transient receptor potential cation channel subfamily C member 5 2 2
MIRT533919 TATDN2 TatD DNase domain containing 2 2 2
MIRT537568 ESYT2 extended synaptotagmin 2 2 2
MIRT538955 BMP2K BMP2 inducible kinase 2 2
MIRT539042 ATXN1L ataxin 1 like 2 4
MIRT539626 CD19 CD19 molecule 2 8
MIRT545720 SPTLC2 serine palmitoyltransferase long chain base subunit 2 2 2
MIRT546013 WDR26 WD repeat domain 26 2 4
MIRT549703 RBM23 RNA binding motif protein 23 2 4
MIRT551162 UBTF upstream binding transcription factor, RNA polymerase I 2 4
MIRT552078 MESDC2 mesoderm development LRP chaperone 2 4
MIRT552530 ZIC5 Zic family member 5 2 2
MIRT552670 YY1 YY1 transcription factor 2 4
MIRT554225 SLC24A2 solute carrier family 24 member 2 2 2
MIRT554356 SFXN5 sideroflexin 5 2 4
MIRT555279 PPTC7 PTC7 protein phosphatase homolog 2 4
MIRT555642 PHF13 PHD finger protein 13 2 2
MIRT558365 DIDO1 death inducer-obliterator 1 2 4
MIRT558630 CNNM2 cyclin and CBS domain divalent metal cation transport mediator 2 2 2
MIRT559238 BEND4 BEN domain containing 4 2 2
MIRT559556 ARF6 ADP ribosylation factor 6 2 2
MIRT561686 RAB1A RAB1A, member RAS oncogene family 2 2
MIRT562668 ANKRD40 ankyrin repeat domain 40 2 2
MIRT565689 SESN3 sestrin 3 2 2
MIRT566238 PTBP3 polypyrimidine tract binding protein 3 2 2
MIRT567699 EIF1AX eukaryotic translation initiation factor 1A, X-linked 2 2
MIRT573858 C9orf78 chromosome 9 open reading frame 78 2 2
MIRT574156 ATP5G3 ATP synthase, H+ transporting, mitochondrial Fo complex subunit C3 (subunit 9) 2 2
MIRT575869 Kif5c kinesin family member 5C 2 3
MIRT576180 Muc15 mucin 15 2 5
MIRT606886 BUB1 BUB1 mitotic checkpoint serine/threonine kinase 2 6
MIRT606908 ZBTB20 zinc finger and BTB domain containing 20 2 4
MIRT606914 MUC15 mucin 15, cell surface associated 2 7
MIRT607250 FAM216B family with sequence similarity 216 member B 2 4
MIRT607562 KIF5C kinesin family member 5C 2 3
MIRT609075 SMIM15 small integral membrane protein 15 2 6
MIRT609160 ZNF415 zinc finger protein 415 2 4
MIRT609360 ACOT2 acyl-CoA thioesterase 2 2 2
MIRT609799 ZDHHC17 zinc finger DHHC-type containing 17 2 2
MIRT610368 GRIPAP1 GRIP1 associated protein 1 2 2
MIRT611341 KIAA2018 upstream transcription factor family member 3 2 4
MIRT611732 PRSS23 protease, serine 23 2 4
MIRT611826 CACNG8 calcium voltage-gated channel auxiliary subunit gamma 8 2 2
MIRT611906 NNT nicotinamide nucleotide transhydrogenase 2 2
MIRT612377 TFCP2 transcription factor CP2 2 4
MIRT613482 LYRM7 LYR motif containing 7 2 2
MIRT613641 DUSP18 dual specificity phosphatase 18 2 4
MIRT613822 LANCL3 LanC like 3 2 4
MIRT613863 CBY3 chibby family member 3 2 4
MIRT613871 TMEM51 transmembrane protein 51 2 2
MIRT614688 TWIST1 twist family bHLH transcription factor 1 2 2
MIRT615044 DCP2 decapping mRNA 2 2 2
MIRT616872 ARPC1B actin related protein 2/3 complex subunit 1B 2 4
MIRT617012 C16orf52 chromosome 16 open reading frame 52 2 2
MIRT618524 CCDC174 coiled-coil domain containing 174 2 2
MIRT621827 TIMM8A translocase of inner mitochondrial membrane 8A 2 2
MIRT622108 SPRY4 sprouty RTK signaling antagonist 4 2 6
MIRT623111 NFATC2 nuclear factor of activated T-cells 2 2 2
MIRT626102 GNAI1 G protein subunit alpha i1 2 4
MIRT626416 ASAP2 ArfGAP with SH3 domain, ankyrin repeat and PH domain 2 2 2
MIRT627656 RTF1 RTF1 homolog, Paf1/RNA polymerase II complex component 2 2
MIRT628333 CHRFAM7A CHRNA7 (exons 5-10) and FAM7A (exons A-E) fusion 2 2
MIRT629334 DNTTIP2 deoxynucleotidyltransferase terminal interacting protein 2 2 2
MIRT630426 LMX1A LIM homeobox transcription factor 1 alpha 2 2
MIRT630707 GDNF glial cell derived neurotrophic factor 2 2
MIRT632568 POLQ DNA polymerase theta 2 2
MIRT632798 KIAA2022 neurite extension and migration factor 2 2
MIRT634125 ZDHHC21 zinc finger DHHC-type containing 21 2 4
MIRT634299 SP1 Sp1 transcription factor 2 2
MIRT634406 PLEKHA2 pleckstrin homology domain containing A2 2 2
MIRT636827 FSIP2 fibrous sheath interacting protein 2 2 2
MIRT638270 SH3PXD2A SH3 and PX domains 2A 2 2
MIRT643060 CCDC149 coiled-coil domain containing 149 2 2
MIRT646160 SLC22A1 solute carrier family 22 member 1 2 2
MIRT648243 AGAP1 ArfGAP with GTPase domain, ankyrin repeat and PH domain 1 2 2
MIRT663402 SYT17 synaptotagmin 17 2 6
MIRT666042 STON2 stonin 2 2 2
MIRT670698 GGA2 golgi associated, gamma adaptin ear containing, ARF binding protein 2 2 2
MIRT672337 TMEM79 transmembrane protein 79 2 4
MIRT672628 C12orf49 chromosome 12 open reading frame 49 2 2
MIRT685229 F2RL1 F2R like trypsin receptor 1 2 2
MIRT693225 KIAA0907 KIAA0907 2 4
MIRT696142 RAB11FIP3 RAB11 family interacting protein 3 2 2
MIRT697908 TXNRD1 thioredoxin reductase 1 2 2
MIRT705315 ATP9A ATPase phospholipid transporting 9A (putative) 2 2
MIRT712264 PPP1CB protein phosphatase 1 catalytic subunit beta 2 2
MIRT714080 ZNF532 zinc finger protein 532 2 2
MIRT715104 SORBS3 sorbin and SH3 domain containing 3 2 2
MIRT722237 RBM41 RNA binding motif protein 41 2 2
MIRT725113 SYNRG synergin gamma 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-4672 Platinum 23939 sensitive High Ovarian Cancer tissue
hsa-miR-4672 Paclitaxel 36314 NSC125973 approved sensitive High Endometrial Serous Carcinoma cell line (USPC1)
hsa-miR-4672 Cisplatin 5460033 NSC119875 approved resistant High Hypopharyngeal Cancer cell line (FaDu)
hsa-mir-4672 Paclitaxel 36314 NSC125973 approved sensitive cell line (A2780)
hsa-mir-4672 Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)
hsa-miR-4672 Temozolomide 5394 NSC362856 approved sensitive cell line (U251)
hsa-miR-4672 Oxaliplatin 6857599 NSC266046 approved sensitive cell line (HCT116)
hsa-miR-4672 Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-4672 Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-4672 Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)
hsa-miR-4672 Platinum 23939 resistant tissue (non-small cell lung cancer)
hsa-miR-4672 Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (100 ng/ml)
hsa-miR-4672 Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (1500 ng/ml)

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