miRTarBase - #MIRT441375


—
pre-miRNA Information
pre-miRNA hsa-mir-4662a   
Genomic Coordinates chr8: 124821985 - 124822051
Description Homo sapiens miR-4662a stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4662a-5p
Sequence 6| UUAGCCAAUUGUCCAUCUUUAG |27
Evidence Experimental
Experiments Illumina
Editing Events in miRNAs
Modification Type Position on miR Chromosome DNA Strand Genomic Position (hg38) List of PMIDs Variant details
A-to-I 3 8 + 124821992 27229138, 28550310, 29165639, 29233923 MiREDiBase
A-to-I 15 8 + 124822004 29233923 MiREDiBase
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs193002095 8 dbSNP
rs1020047688 11 dbSNP
rs1051104297 12 dbSNP
rs577795897 15 dbSNP
rs1347413245 16 dbSNP
Putative Targets

Gene Information
Gene Symbol PAPOLA   
Synonyms PAP
Description poly(A) polymerase alpha
Transcript NM_032632   
Expression
Putative miRNA Targets on PAPOLA
3'UTR of PAPOLA
(miRNA target sites are highlighted)		 
>PAPOLA|NM_032632|3'UTR
   1 AAACAACCTCAGGGGTCCATAAACAATATCTGCCAACTCAACCTGTTGTCTTCAAATGCTAAAAAAGGAGAATGGAGGGT
  81 ACAAGACTAGACATGACTGAAATGGATTTGGGTTTTTTGGTGACCTCCCTTACTGGGCTAATCAGCACTTGATCGGAAGT
 161 CCAGGTTAGTATGTGAAGCCAGGAGTACTATTATTATTGTGTTAGCAACAGTTGCATTAACTATTTCAAAAATTACTGCC
 241 TTTAAAAAAAACAACCTCAAGCTATATTTGTATTCATAATTGACATCTGGATTGGGTTTATGTTTGATGCATTGTTTGGA
 321 AAATTTGCAATACAAACTGGCATAAGAATTACTTATTCTGATGATGCACTTTTATGTATTTTTCATTAGAAAGTAGAACT
 401 AATTTTAGATTTTCAGCTTGATGGATTTTCAGTTTTTCCTGAAGAATTTTCTTTACCATTAGTCTTCAAATTGGATACTG
 481 TTGTGCAGTGGTGTACTGTTATACTTCAGAGAAAGGGTAAGAGTACATCTAGTTCAGTTCCTATGAGGTAGCTGTAACCC
 561 TTAAAAATGAAACGTCAACTCTAGGGTACATTTGACATTGAAAGAATAGTTAGGAAATAACTTGGTTTTGATAGGGTCAT
 641 GATTAAGAAATGATATATTGGTTTTATTTATGGAATTGTTTTATAGTGCATACAAATCAGCGATCAGCCAGCAAATATTT
 721 TTCTTTGAGCTTGTGAAAGCTCTGTGTTCTTTTGCCTTCAATCTGTTGTCTTCAAAACAAACAAACAAAAAAAGCTTCTT
 801 GCGCCTTTCCCTCCCCTGTTTTCTTCCTTTTTCTTTTTGCTTGTATGCACAAGGTAGGACTTACTTCGTAAGAAACAAAA
 881 TGCCAGTATTTTCTTAAGCCATGATGTGAAACCAATGACCCTGTGACCACATGGCACAGAACACTAAATTTTGGTCCCAT
 961 GGCTGAAACTTGAGGGTGACTAAAAGTAATGCCTGTGAAACATGATATCTATCTGGGATGGCCATTTGATCTCTAAAAGG
1041 AATTTTGTACACTCCACAGAACTCCTATCTATAGTAAAATTGATTTTCAGTTTTAAATGTGGGCAAAAAGGCATTTTCTC
1121 CAAGATTTTAAAACTAATTCTTATTTTTAAATGGTTTACCAAAATTTGTCAGTACATTTTACGTGTAGAAGCATTTTAAA
1201 AATCATTTCTAGCAAGCACTTGACATCTAGTCAGCTCTCTACTCCTTTATTTTGTTTTATCAAAAGATTAAGAGCTCCTT
1281 TCTTTGAATAAAATAATTTCTCATAATTAAGCAGTAGAAGATCTATCTTCACAAAGTATGAGGGATGCCAGATGTTGATA
1361 AACTTACTCTTTCTGAATCTGGACAAAGTCGACTTAACAGATTTTTCTGATGAGCATGTTTTATGAATCCTCCATTGTGC
1441 TCCATTCTATCACATGTGCATTTTTCATGTTAAACTGCAATTACTTAATCTCTTCCCCTATCCTTCTAAATTAATTTTCT
1521 GAAGTTGGAGTGTAGTCTTTTCCCCCTTAGGCTATGCATTAATCGAAGCTTTCTTTTCACCATGACTTTATAATGTCTAG
1601 TAAACAATATTTCTACTTCCCACATCTTTGCTTTACACAGTCACCTTGCCCTTCCTTCCACCACCGAAGAAAAAAGATGG
1681 TCATACTAACAGGTGAAATGTACAAGGTGTCTGTGTGTTTTGTGTAGCTTCAGAGTTAGATTGAAATTACCAGGCACAGA
1761 TTTAGTCTTGTCATTTTGTTTACACATTGGGGAAAACAATTCAGTTTATTAAACGTTTCATGTAACTGCACCCAAGTTTT
1841 GCCAAGCTGGAAACTTGGACCTTTTCTGTGTAGTGACTTTTTAATTATAGTTTTCATAACCTGGAGATCAGACTGTTGCT
1921 TTCGCATGATGTATGTAGTGTCTCATGACTGGAGTTTGCTTTGTTTTATAGTATCTGTACTCCTTGTATTTTTCAAGAGC
2001 TATTTTGTAAACAGATGATGTATTTCTCCATTGAAAACACAATAAAAAAAAAACAGCACAATCTCAAAAAAAAAAA
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' gaUUUCUACCUGU-UAACCGAuu 5'
            |:| || ||:| |||||:|  
Target 5' taAGAAAT-GATATATTGGTTtt 3'
 644 - 665 127.00 -9.20
2 
miRNA  3' gaUUUCUA-CC--UGUU-AACCGAuu 5'
            | || | ||  |:|| ||||:|  
Target 5' gaATAGTTAGGAAATAACTTGGTTtt 3'
 604 - 629 118.00 -6.60
3 
miRNA  3' gauUUCUACCUGUUAACCgauu 5'
             ||| |||| | ||||    
Target 5' gccAAGCTGGAAACTTGGacct 3'
 1841 - 1862 111.00 -9.36
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN20630556 5 COSMIC
COSN31593026 30 COSMIC
COSN31613026 47 COSMIC
COSN31487421 54 COSMIC
COSN31608473 71 COSMIC
COSN31498473 85 COSMIC
COSN28192563 101 COSMIC
COSN30511683 135 COSMIC
COSN26576674 146 COSMIC
COSN31579158 150 COSMIC
COSN17734104 186 COSMIC
COSN30541185 244 COSMIC
COSN31520584 269 COSMIC
COSN26669228 278 COSMIC
COSN31523719 317 COSMIC
COSN6265412 386 COSMIC
COSN32065539 508 COSMIC
COSN1667373 528 COSMIC
COSN26101291 544 COSMIC
COSN31610983 888 COSMIC
COSN1667374 902 COSMIC
COSN30176936 966 COSMIC
COSN26648784 976 COSMIC
COSN31609036 1077 COSMIC
COSN22476664 1083 COSMIC
COSN8463034 1189 COSMIC
COSN29314094 1263 COSMIC
COSN31482099 1565 COSMIC
COSN31482122 1643 COSMIC
COSN31534739 1669 COSMIC
COSN31519389 1924 COSMIC
COSN24338588 2003 COSMIC
COSN29006888 2054 COSMIC
COSN31528404 2057 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs754540781 4 dbSNP
rs754068524 6 dbSNP
rs755227140 10 dbSNP
rs1426009499 16 dbSNP
rs1412037940 19 dbSNP
rs1295258551 21 dbSNP
rs1167651378 27 dbSNP
rs765279325 29 dbSNP
rs201607672 30 dbSNP
rs1261618610 35 dbSNP
rs1015177144 36 dbSNP
rs758428847 42 dbSNP
rs1238453496 45 dbSNP
rs367646992 46 dbSNP
rs866733765 62 dbSNP
rs762141465 67 dbSNP
rs1210146801 68 dbSNP
rs1361588060 89 dbSNP
rs1453485976 93 dbSNP
rs1289488209 98 dbSNP
rs911544494 99 dbSNP
rs1268356526 113 dbSNP
rs1280170643 113 dbSNP
rs1444664995 114 dbSNP
rs1334145458 126 dbSNP
rs997664353 130 dbSNP
rs1029550686 152 dbSNP
rs953500425 155 dbSNP
rs1196536243 156 dbSNP
rs56033032 167 dbSNP
rs979892825 184 dbSNP
rs767642266 185 dbSNP
rs561155088 191 dbSNP
rs956705326 192 dbSNP
rs1231950904 194 dbSNP
rs988725622 209 dbSNP
rs913138605 215 dbSNP
rs1289556931 222 dbSNP
rs528570418 224 dbSNP
rs981317433 226 dbSNP
rs1285060396 243 dbSNP
rs1422430381 244 dbSNP
rs927084410 244 dbSNP
rs1279173492 246 dbSNP
rs1405985458 252 dbSNP
rs750586943 253 dbSNP
rs1347820382 254 dbSNP
rs1302108230 255 dbSNP
rs937108954 261 dbSNP
rs1049283361 265 dbSNP
rs1401247030 276 dbSNP
rs887476333 277 dbSNP
rs1398439355 288 dbSNP
rs1325716142 290 dbSNP
rs185348535 294 dbSNP
rs565401229 297 dbSNP
rs1285796233 301 dbSNP
rs1481189714 303 dbSNP
rs1266533892 307 dbSNP
rs1198348993 314 dbSNP
rs112732269 315 dbSNP
rs1244111151 318 dbSNP
rs1218103879 320 dbSNP
rs1445329397 328 dbSNP
rs868494210 343 dbSNP
rs1283872031 344 dbSNP
rs747052266 349 dbSNP
rs1291291150 353 dbSNP
rs1325860824 365 dbSNP
rs1281780236 377 dbSNP
rs528633636 379 dbSNP
rs998146152 386 dbSNP
rs374418175 391 dbSNP
rs889245545 394 dbSNP
rs1428091273 400 dbSNP
rs189750990 411 dbSNP
rs1344124833 418 dbSNP
rs1336758024 420 dbSNP
rs1000999227 425 dbSNP
rs1446987210 440 dbSNP
rs1334475041 446 dbSNP
rs1032383565 464 dbSNP
rs551208037 470 dbSNP
rs1188844359 479 dbSNP
rs144198084 492 dbSNP
rs1339593695 495 dbSNP
rs1184671703 497 dbSNP
rs1475016574 502 dbSNP
rs1241612398 503 dbSNP
rs536971001 515 dbSNP
rs1024909094 528 dbSNP
rs548152130 529 dbSNP
rs1308416995 537 dbSNP
rs566308396 538 dbSNP
rs1213346313 543 dbSNP
rs376169699 544 dbSNP
rs1315146628 545 dbSNP
rs572928393 548 dbSNP
rs545093490 549 dbSNP
rs192768749 575 dbSNP
rs1167990579 583 dbSNP
rs115504079 587 dbSNP
rs565275755 590 dbSNP
rs555987441 591 dbSNP
rs1036040848 599 dbSNP
rs1183258587 602 dbSNP
rs7492490 613 dbSNP
rs1377845775 615 dbSNP
rs770481936 621 dbSNP
rs1481055222 634 dbSNP
rs778701543 637 dbSNP
rs371598117 638 dbSNP
rs541757253 641 dbSNP
rs1350001415 644 dbSNP
rs933592396 645 dbSNP
rs1293118454 656 dbSNP
rs1201577352 657 dbSNP
rs1051118290 676 dbSNP
rs1313682390 685 dbSNP
rs1391629762 702 dbSNP
rs1374982996 703 dbSNP
rs1296308092 709 dbSNP
rs889326435 722 dbSNP
rs1001430512 724 dbSNP
rs752286291 730 dbSNP
rs1422624774 734 dbSNP
rs1383486250 740 dbSNP
rs560413987 742 dbSNP
rs1164099088 743 dbSNP
rs146649353 745 dbSNP
rs1252922555 746 dbSNP
rs1175907397 762 dbSNP
rs1009579959 766 dbSNP
rs540627509 769 dbSNP
rs1225404296 775 dbSNP
rs1357858161 775 dbSNP
rs548473882 775 dbSNP
rs1179219766 778 dbSNP
rs565196687 791 dbSNP
rs80077155 795 dbSNP
rs1345947131 803 dbSNP
rs74086723 804 dbSNP
rs1403769159 812 dbSNP
rs543255654 816 dbSNP
rs1331726758 839 dbSNP
rs1162808637 842 dbSNP
rs544795753 844 dbSNP
rs1157148770 853 dbSNP
rs1472362693 859 dbSNP
rs529581590 859 dbSNP
rs77502443 861 dbSNP
rs1490022914 863 dbSNP
rs909015272 863 dbSNP
rs961796721 868 dbSNP
rs563569710 869 dbSNP
rs971769402 879 dbSNP
rs188029262 887 dbSNP
rs1335265589 892 dbSNP
rs1258392790 898 dbSNP
rs1237907978 904 dbSNP
rs1323730390 913 dbSNP
rs529220529 916 dbSNP
rs1221459442 922 dbSNP
rs1344867977 929 dbSNP
rs1382883922 931 dbSNP
rs932973318 932 dbSNP
rs1285755463 936 dbSNP
rs1287138418 939 dbSNP
rs1456925643 940 dbSNP
rs1321960785 950 dbSNP
rs1407111887 951 dbSNP
rs1179109988 961 dbSNP
rs1479650795 967 dbSNP
rs1050728542 973 dbSNP
rs143862749 976 dbSNP
rs1430763471 982 dbSNP
rs1259073362 985 dbSNP
rs1481805800 987 dbSNP
rs567155698 987 dbSNP
rs1461542810 996 dbSNP
rs180886070 1003 dbSNP
rs552190713 1006 dbSNP
rs570210391 1008 dbSNP
rs184680822 1011 dbSNP
rs1200878918 1024 dbSNP
rs555925899 1025 dbSNP
rs1480104461 1027 dbSNP
rs559370684 1029 dbSNP
rs1434450944 1032 dbSNP
rs1009645423 1035 dbSNP
rs1425564257 1048 dbSNP
rs780648151 1050 dbSNP
rs1460232097 1054 dbSNP
rs1468395110 1057 dbSNP
rs1168797542 1065 dbSNP
rs367736414 1065 dbSNP
rs568672116 1065 dbSNP
rs567882203 1068 dbSNP
rs190583549 1070 dbSNP
rs1371840710 1072 dbSNP
rs1296696580 1074 dbSNP
rs535662449 1076 dbSNP
rs1387438275 1098 dbSNP
rs1305095661 1100 dbSNP
rs1343712703 1103 dbSNP
rs1002595112 1125 dbSNP
rs1223484923 1126 dbSNP
rs1181397285 1135 dbSNP
rs1441428347 1141 dbSNP
rs1273457529 1144 dbSNP
rs1337437379 1151 dbSNP
rs1273803449 1161 dbSNP
rs1227821530 1163 dbSNP
rs181753175 1167 dbSNP
rs1279363876 1178 dbSNP
rs1309659417 1183 dbSNP
rs1033662339 1184 dbSNP
rs749786988 1185 dbSNP
rs1330053651 1191 dbSNP
rs1393487116 1208 dbSNP
rs1395026653 1213 dbSNP
rs1168474023 1218 dbSNP
rs1225651455 1219 dbSNP
rs1386577442 1220 dbSNP
rs1006106698 1226 dbSNP
rs1233087197 1231 dbSNP
rs1016106430 1239 dbSNP
rs1183787496 1242 dbSNP
rs769087202 1243 dbSNP
rs1488571337 1245 dbSNP
rs1223161556 1246 dbSNP
rs1224239859 1246 dbSNP
rs971841498 1246 dbSNP
rs1226679176 1250 dbSNP
rs146853052 1250 dbSNP
rs775030518 1269 dbSNP
rs374436161 1270 dbSNP
rs140537464 1275 dbSNP
rs1444860054 1275 dbSNP
rs1349045639 1285 dbSNP
rs986221388 1287 dbSNP
rs910192104 1289 dbSNP
rs1421520113 1292 dbSNP
rs1300815573 1295 dbSNP
rs1404220861 1303 dbSNP
rs1408318438 1304 dbSNP
rs1159972111 1305 dbSNP
rs1468240383 1312 dbSNP
rs1410979614 1314 dbSNP
rs1199798855 1315 dbSNP
rs186921570 1317 dbSNP
rs1490840101 1321 dbSNP
rs1266670756 1322 dbSNP
rs1426521867 1334 dbSNP
rs774863404 1336 dbSNP
rs150331738 1339 dbSNP
rs1284993969 1340 dbSNP
rs760190026 1346 dbSNP
rs1165673270 1348 dbSNP
rs748380204 1353 dbSNP
rs1363843562 1359 dbSNP
rs1224501445 1364 dbSNP
rs1288121465 1364 dbSNP
rs537707130 1366 dbSNP
rs1273552865 1367 dbSNP
rs1436340176 1368 dbSNP
rs1299378216 1370 dbSNP
rs1319658097 1380 dbSNP
rs1364621717 1383 dbSNP
rs772483510 1387 dbSNP
rs1387451052 1390 dbSNP
rs768120433 1391 dbSNP
rs1481281312 1392 dbSNP
rs1380902722 1395 dbSNP
rs1295390165 1397 dbSNP
rs776164355 1402 dbSNP
rs562990364 1408 dbSNP
rs1247774283 1410 dbSNP
rs945533204 1413 dbSNP
rs1242789249 1417 dbSNP
rs1217957461 1426 dbSNP
rs1463764481 1428 dbSNP
rs1267726274 1430 dbSNP
rs1046486029 1433 dbSNP
rs906628982 1443 dbSNP
rs1002264058 1445 dbSNP
rs191944884 1446 dbSNP
rs773144502 1447 dbSNP
rs1432251569 1449 dbSNP
rs1364076051 1453 dbSNP
rs1336944289 1454 dbSNP
rs1006183257 1456 dbSNP
rs1484885008 1458 dbSNP
rs1357232538 1459 dbSNP
rs1016181915 1474 dbSNP
rs528140102 1476 dbSNP
rs367759949 1496 dbSNP
rs760849346 1501 dbSNP
rs181165367 1508 dbSNP
rs1446206570 1509 dbSNP
rs1247451908 1513 dbSNP
rs1184466264 1520 dbSNP
rs1462778642 1522 dbSNP
rs185715535 1526 dbSNP
rs961902095 1545 dbSNP
rs1383579059 1546 dbSNP
rs1308665561 1563 dbSNP
rs1275697133 1574 dbSNP
rs528035587 1579 dbSNP
rs993312891 1581 dbSNP
rs1030143883 1597 dbSNP
rs117578790 1601 dbSNP
rs1454254548 1603 dbSNP
rs954630349 1604 dbSNP
rs377682333 1606 dbSNP
rs985865276 1609 dbSNP
rs531223687 1616 dbSNP
rs1380372438 1619 dbSNP
rs1454876824 1625 dbSNP
rs766402908 1639 dbSNP
rs1389646890 1646 dbSNP
rs1312467348 1653 dbSNP
rs549438487 1659 dbSNP
rs1017691986 1662 dbSNP
rs1254325922 1665 dbSNP
rs761720813 1666 dbSNP
rs957691702 1667 dbSNP
rs1234917741 1669 dbSNP
rs567819709 1682 dbSNP
rs1285822783 1687 dbSNP
rs1203659560 1692 dbSNP
rs989717218 1693 dbSNP
rs1314580758 1699 dbSNP
rs1215044378 1700 dbSNP
rs1319613005 1702 dbSNP
rs1256466924 1703 dbSNP
rs1224167212 1708 dbSNP
rs1375287550 1716 dbSNP
rs776584050 1722 dbSNP
rs914135470 1723 dbSNP
rs759482324 1732 dbSNP
rs1366115096 1744 dbSNP
rs945606622 1749 dbSNP
rs1459491581 1759 dbSNP
rs982258784 1760 dbSNP
rs1181455264 1766 dbSNP
rs1241549243 1774 dbSNP
rs1444305540 1779 dbSNP
rs1177997430 1781 dbSNP
rs1410314760 1783 dbSNP
rs1180380908 1787 dbSNP
rs1483053632 1807 dbSNP
rs535257456 1815 dbSNP
rs551449973 1816 dbSNP
rs938095689 1817 dbSNP
rs144937738 1822 dbSNP
rs764942720 1833 dbSNP
rs1216084160 1837 dbSNP
rs565836731 1838 dbSNP
rs1318279273 1843 dbSNP
rs1286301028 1848 dbSNP
rs888479928 1851 dbSNP
rs149042934 1855 dbSNP
rs1471167310 1867 dbSNP
rs56132905 1874 dbSNP
rs1285085126 1877 dbSNP
rs1384970481 1879 dbSNP
rs1388691966 1885 dbSNP
rs1335210221 1924 dbSNP
rs1405802416 1926 dbSNP
rs941329673 1930 dbSNP
rs1157478694 1932 dbSNP
rs1472456027 1939 dbSNP
rs1430660480 1940 dbSNP
rs1037646204 1943 dbSNP
rs189689256 1949 dbSNP
rs1266060375 1950 dbSNP
rs1186588169 1953 dbSNP
rs1442537062 1955 dbSNP
rs182450577 1955 dbSNP
rs12147717 1958 dbSNP
rs1265830155 1969 dbSNP
rs1370568416 1981 dbSNP
rs993388251 1983 dbSNP
rs1264715923 1984 dbSNP
rs1230990491 1998 dbSNP
rs1330376945 2008 dbSNP
rs1300752572 2020 dbSNP
rs1030589929 2032 dbSNP
rs1222668261 2039 dbSNP
rs1301902947 2041 dbSNP
rs1007761915 2044 dbSNP
rs1456874406 2044 dbSNP
rs890258323 2044 dbSNP
rs1017340460 2045 dbSNP
rs544618347 2048 dbSNP
rs557689558 2054 dbSNP
rs957722138 2054 dbSNP
rs1020548352 2062 dbSNP
rs1193344675 2065 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions BC-3
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 GSM796040. RNA binding protein: AGO2. Condition:4-Thiouridine ...

- Gottwein E; Corcoran DL; Mukherjee N; et al., 2011, Cell host & microbe.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' gauuucuaccuguuAACCGAUu 5'
                        ||||||| 
Target 5' --------------UUGGCUAg 3'
 		1 - 8
Article - Gottwein E; Corcoran DL; Mukherjee N; et al.
- Cell host & microbe, 2011
Primary effusion lymphoma (PEL) is caused by Kaposi's sarcoma-associated herpesvirus (KSHV) and frequently also harbors Epstein-Barr virus (EBV). The expression of KSHV- and EBV-encoded microRNAs (miRNAs) in PELs suggests a role for these miRNAs in latency and lymphomagenesis. Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites. In addition to a known viral analog of cellular miR-155, we show that KSHV encodes a viral miRNA that mimics cellular miR-142-3p function. In summary, this study identifies an extensive list of KSHV miRNA targets, which are likely to influence viral replication and pathogenesis.
LinkOut: [PMID: 22100165]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions LCL-BAC
Disease MIMAT0019731
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 GSM1020023. 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' gauuucuaccuguuAACCGAUu 5'
                        ||||||| 
Target 5' --------------UUGGCUAg 3'
 		1 - 8
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 GSM1020023
Method / RBP PAR-CLIP / AGO2
Cell line / Condition LCL-BAC / EBV B95-8-infected, 4-thiouridine, RNase T1
Location of target site ENST00000557471.1 | 3UTR | UUGGCUAGCUUAUUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 22291592 / GSE41437
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM796040
Method / RBP PAR-CLIP / AGO2
Cell line / Condition BC-3 / 4-Thiouridine
Location of target site ENST00000557471.1 | 3UTR | UUGGCUAGCUUAUUAA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 22100165 / GSE32109
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
137 hsa-miR-4662a-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT106793 TMEM245 transmembrane protein 245 2 2
MIRT148293 RNF138 ring finger protein 138 2 2
MIRT231332 KLHL20 kelch like family member 20 2 2
MIRT301381 PDXP pyridoxal phosphatase 2 2
MIRT441375 PAPOLA poly(A) polymerase alpha 2 4
MIRT441444 MTX3 metaxin 3 2 2
MIRT441500 SPG20 spartin 2 6
MIRT441517 ZBTB10 zinc finger and BTB domain containing 10 2 2
MIRT441562 LMOD3 leiomodin 3 2 2
MIRT441619 ROCK1 Rho associated coiled-coil containing protein kinase 1 2 6
MIRT441633 KDM5A lysine demethylase 5A 2 2
MIRT441705 ZIC4 Zic family member 4 2 2
MIRT441713 FGF9 fibroblast growth factor 9 2 2
MIRT441779 TXN thioredoxin 2 2
MIRT441917 ACADSB acyl-CoA dehydrogenase, short/branched chain 2 2
MIRT441963 BACE2 beta-site APP-cleaving enzyme 2 2 2
MIRT441974 KPNA1 karyopherin subunit alpha 1 2 2
MIRT441977 ZNF70 zinc finger protein 70 2 4
MIRT442043 SEC62 SEC62 homolog, preprotein translocation factor 2 2
MIRT442050 KLHDC10 kelch domain containing 10 2 2
MIRT442150 INTS6 integrator complex subunit 6 2 2
MIRT442186 HOOK3 hook microtubule tethering protein 3 2 2
MIRT442255 SPRED1 sprouty related EVH1 domain containing 1 2 2
MIRT442280 CCDC108 cilia and flagella associated protein 65 2 4
MIRT442353 OLA1 Obg like ATPase 1 2 4
MIRT442644 NAMPT nicotinamide phosphoribosyltransferase 2 2
MIRT442662 GLRA2 glycine receptor alpha 2 2 2
MIRT442782 HCN1 hyperpolarization activated cyclic nucleotide gated potassium channel 1 2 2
MIRT442861 SCARF1 scavenger receptor class F member 1 2 4
MIRT442900 SOD2 superoxide dismutase 2 2 2
MIRT442922 TFDP2 transcription factor Dp-2 2 2
MIRT442930 RWDD1 RWD domain containing 1 2 2
MIRT442939 CA5B carbonic anhydrase 5B 2 2
MIRT443014 C21orf91 chromosome 21 open reading frame 91 2 2
MIRT443139 ZDHHC21 zinc finger DHHC-type containing 21 2 2
MIRT443576 PPIC peptidylprolyl isomerase C 2 2
MIRT443584 FAM84B family with sequence similarity 84 member B 2 2
MIRT443596 VAT1L vesicle amine transport 1 like 2 2
MIRT443771 STS steroid sulfatase 2 2
MIRT443870 DDTL D-dopachrome tautomerase like 2 2
MIRT452489 BANK1 B-cell scaffold protein with ankyrin repeats 1 2 16
MIRT461187 TRIP4 thyroid hormone receptor interactor 4 2 16
MIRT464093 VPS36 vacuolar protein sorting 36 homolog 2 2
MIRT466637 TAOK1 TAO kinase 1 2 17
MIRT466642 TAGLN2 transgelin 2 2 2
MIRT469936 PTPRF protein tyrosine phosphatase, receptor type F 2 2
MIRT489810 LSP1 lymphocyte-specific protein 1 2 4
MIRT490549 TEX261 testis expressed 261 2 4
MIRT495069 PAQR7 progestin and adipoQ receptor family member 7 2 2
MIRT496723 SRGAP2 SLIT-ROBO Rho GTPase activating protein 2 2 2
MIRT496881 PLA2G16 phospholipase A2 group XVI 2 2
MIRT497017 INO80B INO80 complex subunit B 2 2
MIRT498347 CISD1 CDGSH iron sulfur domain 1 2 2
MIRT498353 ABHD17B abhydrolase domain containing 17B 2 2
MIRT503294 GTF2A1 general transcription factor IIA subunit 1 2 6
MIRT504529 ZNF620 zinc finger protein 620 2 6
MIRT507283 FEM1B fem-1 homolog B 2 2
MIRT507540 DHX33 DEAH-box helicase 33 2 2
MIRT509090 SYNPO2L synaptopodin 2 like 2 4
MIRT510083 PPWD1 peptidylprolyl isomerase domain and WD repeat containing 1 2 8
MIRT510702 SREK1IP1 SREK1 interacting protein 1 2 4
MIRT511355 ITPRIPL2 inositol 1,4,5-trisphosphate receptor interacting protein like 2 2 6
MIRT513119 OSBPL3 oxysterol binding protein like 3 2 2
MIRT515209 CRCP CGRP receptor component 2 2
MIRT516376 TRAF3IP2 TRAF3 interacting protein 2 2 4
MIRT520307 UBXN2A UBX domain protein 2A 2 2
MIRT521124 SHROOM4 shroom family member 4 2 2
MIRT522049 ORAI2 ORAI calcium release-activated calcium modulator 2 2 2
MIRT522947 IPO9 importin 9 2 2
MIRT524418 CNKSR3 CNKSR family member 3 2 2
MIRT525073 FRK fyn related Src family tyrosine kinase 2 2
MIRT525150 ZNF329 zinc finger protein 329 2 2
MIRT528538 TTC22 tetratricopeptide repeat domain 22 2 2
MIRT530560 AKNA AT-hook transcription factor 2 2
MIRT530653 TRIM56 tripartite motif containing 56 2 2
MIRT530823 TMED3 transmembrane p24 trafficking protein 3 2 2
MIRT535689 NEURL1B neuralized E3 ubiquitin protein ligase 1B 2 2
MIRT536881 HIF1A hypoxia inducible factor 1 alpha subunit 2 4
MIRT538295 CSNK2A1 casein kinase 2 alpha 1 2 2
MIRT538783 C6orf89 chromosome 6 open reading frame 89 2 2
MIRT540735 FN3KRP fructosamine 3 kinase related protein 2 2
MIRT540828 GNAT1 G protein subunit alpha transducin 1 2 4
MIRT549086 C5orf51 chromosome 5 open reading frame 51 2 2
MIRT549547 CLPP caseinolytic mitochondrial matrix peptidase proteolytic subunit 2 2
MIRT550203 MAVS mitochondrial antiviral signaling protein 2 4
MIRT555299 PPP4R2 protein phosphatase 4 regulatory subunit 2 2 2
MIRT563173 ZRANB3 zinc finger RANBP2-type containing 3 2 2
MIRT563973 HCFC1 host cell factor C1 2 2
MIRT564610 ZNF703 zinc finger protein 703 2 2
MIRT565345 TMED4 transmembrane p24 trafficking protein 4 2 2
MIRT566437 PHF16 jade family PHD finger 3 1 1
MIRT573087 APLN apelin 2 2
MIRT617053 ZNF677 zinc finger protein 677 2 2
MIRT617404 API5 apoptosis inhibitor 5 2 2
MIRT617459 CCS copper chaperone for superoxide dismutase 2 2
MIRT618191 MACC1 MACC1, MET transcriptional regulator 2 2
MIRT619003 NTMT1 N-terminal Xaa-Pro-Lys N-methyltransferase 1 2 2
MIRT619853 KIR3DX1 killer cell immunoglobulin like receptor, three Ig domains X1 2 2
MIRT622214 SLC39A11 solute carrier family 39 member 11 2 2
MIRT622455 RNF19B ring finger protein 19B 2 2
MIRT622495 RBMS1 RNA binding motif single stranded interacting protein 1 2 2
MIRT623408 KREMEN1 kringle containing transmembrane protein 1 2 2
MIRT626501 ZNF25 zinc finger protein 25 2 2
MIRT636142 WDR37 WD repeat domain 37 2 2
MIRT640645 IGF2 insulin like growth factor 2 2 2
MIRT644638 ICA1L islet cell autoantigen 1 like 2 2
MIRT646673 CCDC69 coiled-coil domain containing 69 2 2
MIRT650041 VHL von Hippel-Lindau tumor suppressor 2 2
MIRT651907 UEVLD UEV and lactate/malate dehyrogenase domains 2 2
MIRT655712 MLF2 myeloid leukemia factor 2 2 2
MIRT655965 NDNF neuron derived neurotrophic factor 2 2
MIRT656110 MSRB3 methionine sulfoxide reductase B3 2 2
MIRT658154 FCHSD2 FCH and double SH3 domains 2 2 2
MIRT661945 FAHD1 fumarylacetoacetate hydrolase domain containing 1 2 2
MIRT664457 WDR92 WD repeat domain 92 2 2
MIRT671622 C20orf144 chromosome 20 open reading frame 144 2 4
MIRT677168 ZNF786 zinc finger protein 786 2 2
MIRT679004 UBN2 ubinuclein 2 2 2
MIRT679181 XIAP X-linked inhibitor of apoptosis 2 2
MIRT679343 PPP1R3B protein phosphatase 1 regulatory subunit 3B 2 2
MIRT679439 C19orf52 translocase of inner mitochondrial membrane 29 2 2
MIRT682503 GLP2R glucagon like peptide 2 receptor 2 2
MIRT683558 SMIM12 small integral membrane protein 12 2 2
MIRT687136 QPCTL glutaminyl-peptide cyclotransferase like 2 2
MIRT687722 KIAA1467 family with sequence similarity 234 member B 2 2
MIRT688411 DUSP2 dual specificity phosphatase 2 2 2
MIRT694684 CD300LG CD300 molecule like family member g 2 2
MIRT695390 WDR41 WD repeat domain 41 2 2
MIRT696136 ALG1 ALG1, chitobiosyldiphosphodolichol beta-mannosyltransferase 2 2
MIRT699113 SMU1 DNA replication regulator and spliceosomal factor 2 2
MIRT702771 IFNLR1 interferon lambda receptor 1 2 2
MIRT704096 DST dystonin 2 2
MIRT704279 DENND5B DENN domain containing 5B 2 2
MIRT707692 FAM118A family with sequence similarity 118 member A 2 2
MIRT708060 LIX1L limb and CNS expressed 1 like 2 2
MIRT710078 BEND3 BEN domain containing 3 2 2
MIRT725480 GPR26 G protein-coupled receptor 26 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-4662a Paclitaxel 36314 NSC125973 approved sensitive cell line (A2780)
hsa-miR-4662a-5p Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)
hsa-miR-4662a-5p Osimertinib 71496458 NSC779217 approved sensitive cell line (PC9)
hsa-miR-4662a-5p Osimertinib 71496458 NSC779217 approved sensitive cell line (HCC827)
hsa-miR-4662a-5p Vemurafenib 42611257 NSC761431 approved resistant cell line (451Lu)

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