miRTarBase - #MIRT444730


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pre-miRNA Information
pre-miRNA hsa-mir-100   
Genomic Coordinates chr11: 122152229 - 122152308
Synonyms MIRN100, miR-100, MIR100
Description Homo sapiens miR-100 stem-loop
Comment This sequence is localised to chromosome 11 and was named mir-100-11 in reference .
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-100-3p
Sequence 48| CAAGCUUGUAUCUAUAGGUAUG |69
Evidence Experimental
Experiments Cloned
Editing Events in miRNAs
Modification Type Position on miR Chromosome DNA Strand Genomic Position (hg38) List of PMIDs Variant details
A-to-I 3 11 - 122152259 29233923 MiREDiBase
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs773933142 2 dbSNP
rs1321972926 4 dbSNP
rs770590792 7 dbSNP
rs1388368183 9 dbSNP
rs909526986 14 dbSNP
rs749039221 15 dbSNP
rs530428149 17 dbSNP
rs775253529 17 dbSNP
Putative Targets

miRNA Expression profile
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol TMC7   
Synonyms -
Description transmembrane channel like 7
Transcript NM_001160364   
Other Transcripts NM_024847   
Expression
Putative miRNA Targets on TMC7
3'UTR of TMC7
(miRNA target sites are highlighted)		 
>TMC7|NM_001160364|3'UTR
   1 CTAGACTGAGCGTGAAGATGGTGCTGCCTGTTGCTTCTAAGCTGACCTAGTGATTCTGCTGAGCCTACAGAGTCTACCTG
  81 GGTTTTGAGTGGACATTTAAAAATATATTTTTCTTGAGTTTAGGCTTTTCCATATGTGCAGCTGTGTTTACCTAACCCAG
 161 CCCTTAATTAGGGCTTCAGTGACTTAGAAAAGCAGGGGAAACCCAAGGCTTTGCCTGCAGACCGGCCACTCTGTGACAAC
 241 TCTACCAAAAACCAACAAGCCATTCAAGCTTTTACAAGAATGAAAGAGCGGAGACGGTAGTTTAGTATTTGAGCCACGAG
 321 TTTATGTGCACAAGTGTTTTGGGTTGTGGACTGAAGCTCAGCCTGTTAATCAGACCAGCCCATGAGTGTATAACAAACAG
 401 AATTGGAGGCTGGTTTCTTAAACACACACGTCCACATTTTTTAGGGTTGTTTTCCTGTGCTTACAATTTTTAATGCATGT
 481 GCCTTTATTTCACAAAACATGTGGCTGGGCGCAGCGGCTCACGCCTGTTATCCCAACACTTTGGGAGGCCGAGGCAGGCG
 561 GAGCACCTAAGTTGGGGAGTTCAAGACCAGCCTGACCAACGTGGAGAAACTCCGTCTCCACTAAAATACAAAATTAGCTG
 641 GGTGTGGTGGCACATGCCTGTAATATCAGCTACTCAGGAGGCTGAGGCAGGAGAATTGCTTGAACCCAGGAGGTGGAGTT
 721 TGCAGTGAGCTGAGATCACACCATTGCACTCCAGCCTGGGCAAAAAGAGCAAAACTCTCCCTAAAAAAAAAATGTAGAAT
 801 ATCTCTTAAGATTTCCGTTATGGTAAAAACCATATGCAATAAATACCTCATTGTAAGCTTACCCAAAATTGATAGATGTC
 881 AACCTTTTAACAGAAGAACAGAAGTTTAAGTTATTGTTTAATGTAATCAGTTTTCATTTTAATATCTTTGAAATCTTTTT
 961 CAAAGGACTGTAGTTTTGTAATGGACTTTTCAAGCCTTCCTTCCATTGTTTTTCTTCCGTTCACTGGCTCCACACGTTTC
1041 CTGGGGAGTAGCCTGGAATTTAAAGTTGGGTGCAGGTTTTAGAAAGCTGTTGCTGTTAACAATAATTCTCCCGGCCATCT
1121 CCACTCCACTACTCAAAAATGCCTGAATCCTTGCTCAGAGGAGCAAAGGTATCTTCTCGTCCCTTTCTTACAGCCATTTT
1201 CTTGCTTTTCCACAAAGATATTATTTAAAGTGGAATATTTTTGTAACTGGGATACCAATGAGCTTTTCGGTCTTTTCCTG
1281 ACTTGGTAAGGTTTATGGGTTTCTAAATCTAATAACTACAGTCATACCACCCTGAAAATGCCTGATCTCGTCTAAATCTA
1361 ATAACTGGTGTCATGGAATTTTGAGTAACCAAAGATTCATTCCAGTCTCACTTAAAAAAATAAATTCTGCTGGGCACAGT
1441 GGCTCATGCCTGCAATCCCAGAACTTTGGGAGTCCAAGGAGGGCAGATCACCTGAAGTCAGAAGTTTGAGACCAGCCTGG
1521 TCAATGTGGCAAGACCCCGTCTCTACTAAAAGTACAAAAATTAGCCAGGCATGGTGGCGTGTGCCTGTAATCCCAGCTAC
1601 TTGGGAGGCTGAGGCATGAGAATCACTTGAACCTGGGAGGTGAAGGCTGCAGTGTGCGAGACCGTGCCACTGTACTCCAG
1681 CCTAGGTGACAGAGGGAGACCCTATCTCAAAAAAAAAGATAGGTGAAAAGAAAAAAAAAGTTGTAATTGTAAACATTTCT
1761 GCCCAGTGCCTTTATATTTATATAACATTTTCACTGTGACCAGACTTGATGATATTCAAGTTTTCTATTTGTGTGTGTGT
1841 GTGTGTGTGTGTGTGATGAACACAACGAAAACGTACTGCGTTTTTTTTCCTATTATAAAAGTGATACTGAAATATGCTAA
1921 TTAATATATTAATTTTAGTTAAATGCTGCTAATATGCATACCTCTTACTTGAAGGTTTTTAATATGTTTTGATAACTTTA
2001 ATAACTTCAGGTGATGTCTGTATAACTTTTAAAGTGCAGCTCTCTCTAACAAATGTGCCTTACAACTCCTGATTAAACGG
2081 CGTCTTGAAGGTTTTAAAA
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' guaUGGAU-AUC--UAUGUUCGAAc 5'
             ||| |  ||  || ||||||| 
Target 5' aaaACCAACAAGCCATTCAAGCTTt 3'
 248 - 272 153.00 -8.30
2 
miRNA  3' guAUGGA-UAUCUAUGUUCGAAc 5'
            ||||| ||   |::|||||| 
Target 5' aaTACCTCAT---TGTAAGCTTa 3'
 842 - 861 145.00 -11.90
3 
miRNA  3' guaUGGAUAUCUAU--GUUCGAAc 5'
             ||:|:  ||||  ||||:|| 
Target 5' cagACTTGATGATATTCAAGTTTt 3'
 1801 - 1824 145.00 -10.70
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN31602384 25 COSMIC
COSN30524341 101 COSMIC
COSN31525510 114 COSMIC
COSN30534718 139 COSMIC
COSN31576605 169 COSMIC
COSN16066898 219 COSMIC
COSN32073910 226 COSMIC
COSN1183880 395 COSMIC
COSN27970148 583 COSMIC
COSN31489417 685 COSMIC
COSN31589779 817 COSMIC
COSN31486464 872 COSMIC
COSN8600819 880 COSMIC
COSN31546463 947 COSMIC
COSN20793394 1060 COSMIC
COSN22565565 1399 COSMIC
COSN20112707 1856 COSMIC
COSN22498444 1874 COSMIC
COSN16923389 1977 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1181695604 5 dbSNP
rs1361912928 8 dbSNP
rs189580041 10 dbSNP
rs371395536 12 dbSNP
rs146675358 13 dbSNP
rs765405446 14 dbSNP
rs750508794 23 dbSNP
rs376229203 25 dbSNP
rs1309383080 28 dbSNP
rs1011301266 29 dbSNP
rs982588397 30 dbSNP
rs917639226 31 dbSNP
rs781247442 32 dbSNP
rs752571425 33 dbSNP
rs755976674 39 dbSNP
rs777684436 48 dbSNP
rs749038368 52 dbSNP
rs949097812 58 dbSNP
rs1022898344 60 dbSNP
rs927576669 64 dbSNP
rs968272514 66 dbSNP
rs1258099887 69 dbSNP
rs937535178 69 dbSNP
rs566001639 70 dbSNP
rs113935206 73 dbSNP
rs536870386 74 dbSNP
rs1271428023 77 dbSNP
rs779378951 79 dbSNP
rs1366735095 80 dbSNP
rs577779393 88 dbSNP
rs570245057 101 dbSNP
rs1041831280 108 dbSNP
rs140214643 130 dbSNP
rs746590223 137 dbSNP
rs891182936 140 dbSNP
rs1304262157 145 dbSNP
rs1447477290 152 dbSNP
rs1466320064 153 dbSNP
rs182558478 157 dbSNP
rs570463168 159 dbSNP
rs1431625500 164 dbSNP
rs1433558137 180 dbSNP
rs1331548624 193 dbSNP
rs976060622 194 dbSNP
rs1390836846 201 dbSNP
rs1163045865 203 dbSNP
rs919217840 208 dbSNP
rs1448237144 215 dbSNP
rs116898628 219 dbSNP
rs953510293 222 dbSNP
rs553047124 224 dbSNP
rs145172436 225 dbSNP
rs984866936 228 dbSNP
rs1207904260 246 dbSNP
rs1343560158 250 dbSNP
rs1026852272 252 dbSNP
rs951239995 253 dbSNP
rs541886564 257 dbSNP
rs796539066 262 dbSNP
rs1024739663 263 dbSNP
rs970850164 264 dbSNP
rs79796133 270 dbSNP
rs926313619 273 dbSNP
rs1044618969 290 dbSNP
rs575087409 291 dbSNP
rs1371043351 293 dbSNP
rs76062915 296 dbSNP
rs1456405356 297 dbSNP
rs1370273707 299 dbSNP
rs1165745549 301 dbSNP
rs1418778928 306 dbSNP
rs138996073 318 dbSNP
rs1052773829 319 dbSNP
rs1184837985 325 dbSNP
rs891438576 326 dbSNP
rs1483605769 332 dbSNP
rs116030751 335 dbSNP
rs541048463 353 dbSNP
rs1487182301 365 dbSNP
rs891221715 366 dbSNP
rs889529787 372 dbSNP
rs1245054074 379 dbSNP
rs372054902 387 dbSNP
rs1328092654 391 dbSNP
rs944080951 393 dbSNP
rs185278307 400 dbSNP
rs1190353037 414 dbSNP
rs899878981 419 dbSNP
rs1248416900 428 dbSNP
rs1017692132 430 dbSNP
rs1170764038 431 dbSNP
rs1309535492 433 dbSNP
rs1392953559 437 dbSNP
rs1294246659 443 dbSNP
rs1453285095 446 dbSNP
rs1386679469 450 dbSNP
rs1048316441 456 dbSNP
rs1473091681 462 dbSNP
rs1197371847 472 dbSNP
rs886996751 472 dbSNP
rs1435485746 477 dbSNP
rs1426608180 480 dbSNP
rs1209869235 490 dbSNP
rs1414580050 499 dbSNP
rs1265784642 502 dbSNP
rs769419566 509 dbSNP
rs530154527 511 dbSNP
rs1329595605 515 dbSNP
rs1386071520 516 dbSNP
rs548664701 517 dbSNP
rs570268431 519 dbSNP
rs530031935 523 dbSNP
rs1434405498 524 dbSNP
rs190089463 525 dbSNP
rs1321575250 530 dbSNP
rs950777935 532 dbSNP
rs985180022 538 dbSNP
rs552946462 545 dbSNP
rs1434892614 551 dbSNP
rs149005301 552 dbSNP
rs1345786922 553 dbSNP
rs1223351349 555 dbSNP
rs1002394106 560 dbSNP
rs1331408574 561 dbSNP
rs1018937764 563 dbSNP
rs1033413564 564 dbSNP
rs957713402 565 dbSNP
rs989124198 566 dbSNP
rs979940004 568 dbSNP
rs534643249 573 dbSNP
rs1277618134 593 dbSNP
rs1198475144 595 dbSNP
rs1346889810 598 dbSNP
rs928414449 601 dbSNP
rs1227583534 602 dbSNP
rs1363116194 614 dbSNP
rs552716864 615 dbSNP
rs775161303 617 dbSNP
rs568013855 620 dbSNP
rs1398089847 621 dbSNP
rs775446703 637 dbSNP
rs1196618315 643 dbSNP
rs947112220 645 dbSNP
rs912762789 652 dbSNP
rs535184302 653 dbSNP
rs749081878 669 dbSNP
rs1449577072 671 dbSNP
rs944212625 685 dbSNP
rs546600037 697 dbSNP
rs1039793438 708 dbSNP
rs1443864579 717 dbSNP
rs1256682912 725 dbSNP
rs1248432910 731 dbSNP
rs80277966 735 dbSNP
rs889550075 740 dbSNP
rs1007009629 745 dbSNP
rs1039193816 749 dbSNP
rs1159486783 752 dbSNP
rs1282573143 762 dbSNP
rs71374452 762 dbSNP
rs901992485 768 dbSNP
rs1450538954 779 dbSNP
rs1048347282 783 dbSNP
rs879493112 783 dbSNP
rs887026265 794 dbSNP
rs1372906795 798 dbSNP
rs1394167413 800 dbSNP
rs533740962 802 dbSNP
rs997628880 804 dbSNP
rs1309195903 811 dbSNP
rs1026549162 812 dbSNP
rs553501120 817 dbSNP
rs575141299 818 dbSNP
rs1006257239 820 dbSNP
rs1046303359 822 dbSNP
rs1368810846 836 dbSNP
rs765323896 845 dbSNP
rs376273680 850 dbSNP
rs1181242067 853 dbSNP
rs906387046 864 dbSNP
rs1002024939 883 dbSNP
rs1205785980 892 dbSNP
rs1451102841 896 dbSNP
rs1016646376 898 dbSNP
rs1230216881 902 dbSNP
rs545582456 905 dbSNP
rs1033449204 907 dbSNP
rs1287997575 911 dbSNP
rs188315912 923 dbSNP
rs566628002 929 dbSNP
rs768776570 931 dbSNP
rs1289454622 936 dbSNP
rs1436483593 938 dbSNP
rs573030506 947 dbSNP
rs1010585404 957 dbSNP
rs980159785 959 dbSNP
rs540489782 980 dbSNP
rs1229198538 983 dbSNP
rs559500851 984 dbSNP
rs774395628 987 dbSNP
rs978113369 991 dbSNP
rs959884942 996 dbSNP
rs530058910 1003 dbSNP
rs913181020 1018 dbSNP
rs373566380 1019 dbSNP
rs1207903087 1020 dbSNP
rs1223811509 1021 dbSNP
rs965954433 1024 dbSNP
rs762030653 1037 dbSNP
rs573382469 1039 dbSNP
rs193282040 1041 dbSNP
rs74014439 1053 dbSNP
rs942464419 1066 dbSNP
rs143790689 1067 dbSNP
rs1277155788 1068 dbSNP
rs940023853 1073 dbSNP
rs900914480 1076 dbSNP
rs1248937110 1078 dbSNP
rs761658515 1087 dbSNP
rs1046767516 1090 dbSNP
rs1390534564 1092 dbSNP
rs906425773 1097 dbSNP
rs1413730072 1098 dbSNP
rs933531918 1103 dbSNP
rs1047878179 1112 dbSNP
rs886702635 1114 dbSNP
rs1006845860 1121 dbSNP
rs561096085 1121 dbSNP
rs760308924 1123 dbSNP
rs1016285984 1124 dbSNP
rs1466460951 1127 dbSNP
rs1209810738 1130 dbSNP
rs1054932172 1141 dbSNP
rs1182423418 1143 dbSNP
rs760815531 1144 dbSNP
rs1472013975 1155 dbSNP
rs1165300566 1162 dbSNP
rs1220373341 1169 dbSNP
rs766569385 1170 dbSNP
rs74014440 1172 dbSNP
rs960103339 1180 dbSNP
rs755332128 1182 dbSNP
rs1289121167 1188 dbSNP
rs1446933061 1195 dbSNP
rs1357227222 1221 dbSNP
rs74369607 1223 dbSNP
rs765774038 1232 dbSNP
rs1389596506 1239 dbSNP
rs968679866 1258 dbSNP
rs183755720 1269 dbSNP
rs1338994241 1270 dbSNP
rs1247264015 1280 dbSNP
rs1482476037 1291 dbSNP
rs965621702 1296 dbSNP
rs1212188041 1297 dbSNP
rs115985182 1303 dbSNP
rs942395885 1327 dbSNP
rs1225495385 1331 dbSNP
rs1343687052 1332 dbSNP
rs1028485316 1333 dbSNP
rs976387212 1350 dbSNP
rs758855215 1351 dbSNP
rs1304411492 1362 dbSNP
rs1415296952 1363 dbSNP
rs1369817143 1367 dbSNP
rs1306135760 1371 dbSNP
rs780570014 1377 dbSNP
rs1431627395 1382 dbSNP
rs984198448 1384 dbSNP
rs1272453633 1389 dbSNP
rs1422330168 1393 dbSNP
rs929694432 1394 dbSNP
rs376784453 1395 dbSNP
rs908605766 1414 dbSNP
rs1254881496 1428 dbSNP
rs1440287046 1432 dbSNP
rs1250163805 1436 dbSNP
rs745321874 1440 dbSNP
rs940033067 1448 dbSNP
rs1220331735 1454 dbSNP
rs1369369949 1458 dbSNP
rs547231449 1459 dbSNP
rs1314456077 1462 dbSNP
rs886583948 1465 dbSNP
rs942310444 1467 dbSNP
rs1392628009 1469 dbSNP
rs755776284 1473 dbSNP
rs879660524 1478 dbSNP
rs1397268454 1479 dbSNP
rs1293068579 1482 dbSNP
rs1456478272 1492 dbSNP
rs906112762 1496 dbSNP
rs1351795184 1501 dbSNP
rs1165931961 1508 dbSNP
rs58481139 1520 dbSNP
rs1057120676 1521 dbSNP
rs779747868 1527 dbSNP
rs749135151 1539 dbSNP
rs544893225 1540 dbSNP
rs148134861 1547 dbSNP
rs1397967814 1549 dbSNP
rs1274584194 1550 dbSNP
rs1042556859 1553 dbSNP
rs968983269 1555 dbSNP
rs58058549 1557 dbSNP
rs1241076702 1564 dbSNP
rs568593900 1566 dbSNP
rs1336230782 1571 dbSNP
rs1227466499 1576 dbSNP
rs1018649587 1579 dbSNP
rs778801128 1580 dbSNP
rs1295313171 1588 dbSNP
rs1326813043 1593 dbSNP
rs1456976071 1594 dbSNP
rs976395682 1626 dbSNP
rs922232644 1634 dbSNP
rs539275487 1638 dbSNP
rs900163037 1643 dbSNP
rs997086190 1651 dbSNP
rs112710471 1656 dbSNP
rs572955638 1658 dbSNP
rs764770159 1659 dbSNP
rs1193849814 1661 dbSNP
rs984229533 1664 dbSNP
rs1245842292 1672 dbSNP
rs1206635308 1675 dbSNP
rs942231790 1678 dbSNP
rs1037864539 1680 dbSNP
rs1201782901 1681 dbSNP
rs1351140784 1690 dbSNP
rs1255281074 1696 dbSNP
rs1312739072 1701 dbSNP
rs1231053129 1706 dbSNP
rs1016105483 1709 dbSNP
rs1211963124 1709 dbSNP
rs1434616662 1712 dbSNP
rs1363228038 1724 dbSNP
rs927537294 1731 dbSNP
rs961452153 1731 dbSNP
rs982524071 1731 dbSNP
rs112059610 1732 dbSNP
rs1171319296 1741 dbSNP
rs1057171611 1744 dbSNP
rs773179364 1745 dbSNP
rs186864863 1752 dbSNP
rs1448386361 1756 dbSNP
rs915145451 1769 dbSNP
rs11860136 1778 dbSNP
rs529418692 1781 dbSNP
rs771130519 1788 dbSNP
rs1255295327 1795 dbSNP
rs1450573494 1796 dbSNP
rs1198629146 1803 dbSNP
rs1486639431 1813 dbSNP
rs1176002094 1816 dbSNP
rs1227706995 1818 dbSNP
rs1042219317 1823 dbSNP
rs1040516566 1828 dbSNP
rs1272083308 1828 dbSNP
rs542229858 1828 dbSNP
rs1491412940 1829 dbSNP
rs1198208339 1830 dbSNP
rs1204362583 1830 dbSNP
rs1476082445 1830 dbSNP
rs1482105142 1830 dbSNP
rs201634686 1830 dbSNP
rs5816025 1830 dbSNP
rs367660641 1831 dbSNP
rs757825424 1832 dbSNP
rs1489556602 1834 dbSNP
rs141127589 1840 dbSNP
rs1275283632 1844 dbSNP
rs1355851586 1852 dbSNP
rs1282677655 1855 dbSNP
rs1356521868 1855 dbSNP
rs398119276 1856 dbSNP
rs995779689 1858 dbSNP
rs1018075088 1862 dbSNP
rs963932942 1867 dbSNP
rs1049984666 1868 dbSNP
rs998036093 1872 dbSNP
rs1029298258 1873 dbSNP
rs1006143149 1874 dbSNP
rs951080767 1874 dbSNP
rs1433179841 1880 dbSNP
rs1015724358 1881 dbSNP
rs1181353217 1881 dbSNP
rs1471599663 1881 dbSNP
rs139141986 1889 dbSNP
rs982465937 1892 dbSNP
rs1367128021 1893 dbSNP
rs563801625 1898 dbSNP
rs776806149 1914 dbSNP
rs1035503969 1915 dbSNP
rs1382675417 1921 dbSNP
rs962456144 1921 dbSNP
rs1300551359 1929 dbSNP
rs575830225 1936 dbSNP
rs1280676620 1939 dbSNP
rs139059798 1944 dbSNP
rs927420103 1946 dbSNP
rs937587524 1954 dbSNP
rs1057412240 1959 dbSNP
rs1462747030 1960 dbSNP
rs759946424 1962 dbSNP
rs1394902319 1964 dbSNP
rs946079762 1965 dbSNP
rs62025556 1987 dbSNP
rs1158087299 1999 dbSNP
rs1398771485 2016 dbSNP
rs767825668 2019 dbSNP
rs1409991055 2024 dbSNP
rs4567694 2027 dbSNP
rs1206452951 2034 dbSNP
rs1195700615 2040 dbSNP
rs1270358596 2047 dbSNP
rs978409558 2068 dbSNP
rs1247667131 2069 dbSNP
rs1207174050 2070 dbSNP
rs1319108466 2071 dbSNP
rs904616067 2079 dbSNP
rs936061232 2080 dbSNP
rs1039531104 2082 dbSNP
rs752991113 2083 dbSNP
rs1040148363 2091 dbSNP
rs1442496365 2092 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions BC-1
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 GSM796037. RNA binding protein: AGO2. Condition:4-Thiouridine PAR-CLIP data was present in GSM796038. 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' guauggauaucuauGUUCGAAc 5'
                        ||||||| 
Target 5' -------------uCAAGCUUu 3'
 		1 - 9
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]
CLIP-seq Support 1 for dataset GSM796037
Method / RBP PAR-CLIP / AGO2
Cell line / Condition BC-1 / 4-Thiouridine
Location of target site ENST00000421369.3 | 3UTR | UCAAGCUUUUACAAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 22100165 / GSE32109
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM796038
Method / RBP PAR-CLIP / AGO2
Cell line / Condition BC-1 / 4-Thiouridine
Location of target site ENST00000421369.3 | 3UTR | UCAAGCUUUUACAAGA
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
GSE28544 Breast cancer 0.73 2.6e-5 0.691 9.3e-5 24 Click to see details
GSE28260 Renal cortex and medulla 0.614 1.3e-2 0.637 9.6e-3 13 Click to see details
GSE26953 Aortic valvular endothelial cells -0.361 4.2e-2 -0.389 3.0e-2 24 Click to see details
GSE21687 Ependynoma primary tumors -0.207 5.0e-2 -0.133 1.5e-1 64 Click to see details
GSE38974 Chronic obstructive pulmonary disease 0.307 6.8e-2 0.314 6.3e-2 25 Click to see details
GSE17498 Multiple myeloma 0.172 1.4e-1 0.130 2.1e-1 40 Click to see details
GSE42095 Differentiated embryonic stem cells -0.179 2.1e-1 -0.223 1.5e-1 23 Click to see details
GSE15076 Monocyte-derived dendritic cells -0.194 3.1e-1 -0.233 2.7e-1 9 Click to see details
GSE38226 Liver fibrosis 0.086 3.6e-1 0.113 3.1e-1 21 Click to see details
GSE19350 CNS germ cell tumors -0.096 3.8e-1 0.014 4.8e-1 12 Click to see details
GSE35602 Colorectal cancer stromal tissue -0.055 4.0e-1 0.488 6.7e-3 25 Click to see details
GSE32688 Pancreatic cancer -0.04 4.1e-1 -0.001 5.0e-1 32 Click to see details
GSE34608 Pulmonary tuberculosis and sarcoidosis -0.027 4.6e-1 0.093 3.5e-1 20 Click to see details
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
KICH 0.865 0.01 0.486 0.16 6 Click to see details
HNSC 0.416 0.02 0.379 0.03 24 Click to see details
STAD 0.47 0.04 0.284 0.16 14 Click to see details
THCA -0.219 0.08 -0.205 0.09 44 Click to see details
BRCA -0.372 0.13 -0.545 0.04 11 Click to see details
LUAD -0.486 0.13 -0.107 0.41 7 Click to see details
LUSC -0.219 0.16 -0.300 0.09 22 Click to see details
BLCA 0.34 0.2 0.119 0.39 8 Click to see details
CHOL 0.348 0.28 0.300 0.31 5 Click to see details
UCEC -0.194 0.28 -0.145 0.34 11 Click to see details
KIRP 0.206 0.28 0.200 0.29 10 Click to see details
KIRC 0.282 0.29 0.543 0.13 6 Click to see details
PRAD 0.091 0.34 0.210 0.16 24 Click to see details
LIHC -0.073 0.35 -0.108 0.28 30 Click to see details
LIHC -0.073 0.35 -0.108 0.28 30 Click to see details
LIHC -0.073 0.35 -0.108 0.28 30 Click to see details
LIHC -0.073 0.35 -0.108 0.28 30 Click to see details
LIHC -0.073 0.35 -0.108 0.28 30 Click to see details
107 hsa-miR-100-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT105690 LEPROTL1 leptin receptor overlapping transcript like 1 2 2
MIRT151558 HNRNPUL1 heterogeneous nuclear ribonucleoprotein U like 1 2 4
MIRT167753 SGK1 serum/glucocorticoid regulated kinase 1 2 2
MIRT195380 CBFB core-binding factor beta subunit 2 2
MIRT283995 DNAJA2 DnaJ heat shock protein family (Hsp40) member A2 2 2
MIRT317145 E2F3 E2F transcription factor 3 2 4
MIRT380785 ZFP3 ZFP3 zinc finger protein 2 2
MIRT380927 ZNF264 zinc finger protein 264 2 2
MIRT441600 ABCB5 ATP binding cassette subfamily B member 5 2 6
MIRT443896 NUDT3 nudix hydrolase 3 2 4
MIRT444030 GREM1 gremlin 1, DAN family BMP antagonist 2 4
MIRT444112 CEPT1 choline/ethanolamine phosphotransferase 1 2 2
MIRT444169 ZNF701 zinc finger protein 701 2 2
MIRT444366 TIMM8B translocase of inner mitochondrial membrane 8 homolog B 2 2
MIRT444371 CNBP CCHC-type zinc finger nucleic acid binding protein 2 2
MIRT444517 ZNF525 zinc finger protein 525 2 2
MIRT444525 CNIH4 cornichon family AMPA receptor auxiliary protein 4 2 2
MIRT444529 EIF2A eukaryotic translation initiation factor 2A 2 2
MIRT444537 PHKB phosphorylase kinase regulatory subunit beta 2 2
MIRT444702 GATSL2 cytosolic arginine sensor for mTORC1 subunit 2 2 2
MIRT444717 CMSS1 cms1 ribosomal small subunit homolog (yeast) 2 2
MIRT444730 TMC7 transmembrane channel like 7 2 2
MIRT444777 NAPEPLD N-acyl phosphatidylethanolamine phospholipase D 2 2
MIRT444802 TMEM251 transmembrane protein 251 2 2
MIRT444995 LRRC57 leucine rich repeat containing 57 2 2
MIRT445073 C16orf87 chromosome 16 open reading frame 87 2 2
MIRT445250 SEMA5A semaphorin 5A 2 2
MIRT445336 KATNAL1 katanin catalytic subunit A1 like 1 2 2
MIRT445426 TPT1 tumor protein, translationally-controlled 1 2 4
MIRT445469 TRIM13 tripartite motif containing 13 2 2
MIRT445646 NPY4R neuropeptide Y receptor Y4 2 2
MIRT445759 AGO1 argonaute 1, RISC catalytic component 2 2
MIRT445838 SRSF11 serine and arginine rich splicing factor 11 2 2
MIRT445868 ENTPD7 ectonucleoside triphosphate diphosphohydrolase 7 2 2
MIRT446368 STX16 syntaxin 16 2 2
MIRT446444 THYN1 thymocyte nuclear protein 1 2 2
MIRT446593 TASP1 taspase 1 2 2
MIRT446926 SRSF7 serine and arginine rich splicing factor 7 2 2
MIRT447121 SLFN5 schlafen family member 5 2 2
MIRT447196 CDCP1 CUB domain containing protein 1 2 2
MIRT447358 STOM stomatin 2 2
MIRT447361 FAM161B family with sequence similarity 161 member B 2 2
MIRT447374 NUP205 nucleoporin 205 2 2
MIRT447467 OSMR oncostatin M receptor 2 2
MIRT447606 MRPL3 mitochondrial ribosomal protein L3 2 2
MIRT447682 ASPA aspartoacylase 2 2
MIRT447715 ERP44 endoplasmic reticulum protein 44 2 2
MIRT447814 EMX1 empty spiracles homeobox 1 2 2
MIRT447855 RRP8 ribosomal RNA processing 8 2 4
MIRT447866 KIAA1244 ARFGEF family member 3 1 1
MIRT447890 STRIP2 striatin interacting protein 2 2 2
MIRT447916 PACSIN1 protein kinase C and casein kinase substrate in neurons 1 2 2
MIRT447935 DUSP4 dual specificity phosphatase 4 2 2
MIRT448813 GABRB1 gamma-aminobutyric acid type A receptor beta1 subunit 2 2
MIRT448927 CKS1B CDC28 protein kinase regulatory subunit 1B 2 2
MIRT449105 CREBRF CREB3 regulatory factor 2 2
MIRT449216 ZNHIT3 zinc finger HIT-type containing 3 2 2
MIRT449336 ACTBL2 actin, beta like 2 2 2
MIRT449675 SOX3 SRY-box 3 2 2
MIRT449724 POU2F1 POU class 2 homeobox 1 2 2
MIRT449768 PRAMEF7 PRAME family member 7 2 2
MIRT449804 PRAMEF8 PRAME family member 8 2 2
MIRT449850 BCL2L13 BCL2 like 13 2 2
MIRT449866 POFUT2 protein O-fucosyltransferase 2 2 2
MIRT450067 SYT9 synaptotagmin 9 2 2
MIRT450197 ZHX3 zinc fingers and homeoboxes 3 2 2
MIRT450386 TENM4 teneurin transmembrane protein 4 2 2
MIRT450435 PAX8 paired box 8 2 2
MIRT450716 PVRL3 nectin cell adhesion molecule 3 2 2
MIRT495906 PGM2L1 phosphoglucomutase 2 like 1 2 2
MIRT497543 PPTC7 PTC7 protein phosphatase homolog 2 2
MIRT497630 ZNF576 zinc finger protein 576 2 2
MIRT497756 OXGR1 oxoglutarate receptor 1 2 2
MIRT498072 SLC25A12 solute carrier family 25 member 12 2 2
MIRT500542 XPO4 exportin 4 2 4
MIRT500848 SYPL1 synaptophysin like 1 2 4
MIRT511621 HIST1H3J histone cluster 1 H3 family member j 2 4
MIRT513745 PKNOX1 PBX/knotted 1 homeobox 1 2 2
MIRT535077 PPP1CB protein phosphatase 1 catalytic subunit beta 2 2
MIRT543133 ZFP36L1 ZFP36 ring finger protein like 1 2 2
MIRT544518 GTF2E2 general transcription factor IIE subunit 2 2 2
MIRT544666 MED19 mediator complex subunit 19 2 2
MIRT545407 KIAA1715 lunapark, ER junction formation factor 2 2
MIRT547569 LRIG3 leucine rich repeats and immunoglobulin like domains 3 2 4
MIRT548767 CNN3 calponin 3 2 2
MIRT551009 TRIM4 tripartite motif containing 4 2 2
MIRT555077 PURG purine rich element binding protein G 2 2
MIRT560753 ZNF616 zinc finger protein 616 2 2
MIRT563752 FOXO3 forkhead box O3 2 2
MIRT565531 SON SON DNA binding protein 2 2
MIRT613933 HIVEP3 human immunodeficiency virus type I enhancer binding protein 3 2 2
MIRT614433 TAZ tafazzin 2 2
MIRT622520 RAP2A RAP2A, member of RAS oncogene family 2 2
MIRT626037 AREL1 apoptosis resistant E3 ubiquitin protein ligase 1 2 2
MIRT648459 LEAP2 liver enriched antimicrobial peptide 2 2 2
MIRT654982 PLCXD3 phosphatidylinositol specific phospholipase C X domain containing 3 2 4
MIRT689103 ZBTB25 zinc finger and BTB domain containing 25 2 2
MIRT704259 DHCR24 24-dehydrocholesterol reductase 2 2
MIRT711194 CXCL3 C-X-C motif chemokine ligand 3 2 2
MIRT713315 VLDLR very low density lipoprotein receptor 2 2
MIRT717266 BMPR2 bone morphogenetic protein receptor type 2 4 2
MIRT718248 CCDC18 coiled-coil domain containing 18 2 2
MIRT721944 NGRN neugrin, neurite outgrowth associated 2 2
MIRT721948 IL1RAPL1 interleukin 1 receptor accessory protein like 1 2 2
MIRT734969 PIK3R1 phosphoinositide-3-kinase regulatory subunit 1 3 0
MIRT735945 NME2 NME/NM23 nucleoside diphosphate kinase 2 0 0
MIRT737404 HOXA1 homeobox A1 4 0
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-100 Trichostatin A (TSA) NULL 444732 Microarray human pancreatic cancer cell line BxPC-3 19112422 2009 up-regulated
miR-100 Etoposide approved 36462 Microarray Normal human fibroblasts (AG01522) 19633716 2009 down-regulated
miR-100 Formaldehyde NULL 712 Microarray Human lung epithelial cells (A549) 21147603 2011 down-regulated
miR-100 Arsenic trioxide approved 14888 Quantitative real-time PCR acute promyelocytic leukemia 22072212 2012 up-regulated
miR-100 Docetaxel approved 148124 Microarray human lung adenocarcinoma cells 22120675 2012 up-regulated
miR-100 Trastuzumab approved NULL Microarray BT474 cells 22384020 2012 up-regulated
miR-100 Trastuzumab approved NULL Microarray SKBR3 cells. 22384020 2012 up-regulated
miR-100 1,2,6-Tri-O-galloyl-beta-D-glucopyranose NULL NULL Microarray HepG2 hepatocarcinoma cells. 22506400 2011 down-regulated
miR-100 Bicalutamide approved 2375 Microarray prostate 22674191 2012 up-regulated
miR-100 Goserelin approved 47725 Microarray prostate 22674191 2012 up-regulated
miR-100 Glucocorticoid NULL NULL Quantitative real-time PCR Eosinophilic esophagitis 22815788 2012 up-regulated
miR-100 Glucocorticoid NULL NULL TaqMan low-density array Eosinophilic esophagitis 22815788 2012 up-regulated
miR-100 Ginsenoside Rh2 NULL 119307 Microarray NSCLC cell line A549 23152132 2013 down-regulated
miR-100 17beta-estradiol (E2) approved 5757 Microarray rat breast 17700064 2007 down-regulated
miR-100 Budesonide approved 5281004 Microarray neonatal mice liver 20145010 2010 down-regulated
miR-100 Propranolol approved 4946 Quantitative real-time PCR heart 22847192 2012 up-regulated
miR-100 Dexamethasone approved 5743 Microarray adrenals and granulosa cells 24205079 2014 down-regulated
miR-100 Ethanol NULL 702 Microarray zebrafish embryos 22298809 2012 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-100 Dabrafenib 44462760 NSC764134 approved sensitive cell line (A375)
hsa-mir-100 Paclitaxel 36314 NSC125973 approved sensitive cell line (W1)
hsa-mir-100 Doxorubicin 31703 NSC123127 approved sensitive cell line (W1)
hsa-mir-100 Methotrexate 126941 NSC740 approved sensitive cell line (W1)
hsa-mir-100 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-mir-100 Androstenedione+Anastrozole resistant cell line (MCF-7)
hsa-mir-100 Tamoxifen 2733525 NSC180973 approved sensitive cell line (MCF7)
hsa-mir-100 Cisplatin 5460033 NSC119875 approved sensitive cell line (BxPC3)
hsa-miR-100-3p Cisplatin 5460033 NSC119875 approved resistant High Ovarian Cancer cell line (SKOV3)
hsa-miR-100-3p Taxane 9548828 sensitive High Prostate Cancer cell line (PC-3, PR200)
hsa-miR-100-3p Imatinib 5291 NSC743414 approved sensitive High Chronic Myelogenous Leukemia leukemia stem cells
hsa-miR-100-3p Ponatinib 24826799 NSC758487 approved sensitive High Chronic Myelogenous Leukemia leukemia stem cells
hsa-miR-100-3p Docetaxel 148124 NSC628503 approved sensitive High Prostate Cancer cell line (PC-3)
hsa-miR-100-3p Gefitinib 123631 NSC715055 approved sensitive cell line (PC9)
hsa-miR-100-3p Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)
hsa-miR-100-3p Osimertinib 71496458 NSC779217 approved sensitive cell line (PC9)
hsa-miR-100-3p Vemurafenib 42611257 NSC761431 approved sensitive cell line (A375)
hsa-miR-100-3p Vemurafenib 42611257 NSC761431 approved sensitive cell line (451Lu)
hsa-miR-100-3p Palbociclib 5330286 NSC758247 approved sensitive tissue (breast cancer)
hsa-miR-100-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-100-3p Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)
hsa-miR-100-3p Cisplatin 5460033 NSC119875 approved resistant cell line (RPMI2650)
hsa-miR-100-3p Pegylated interferon alpha+Ribavirin resistant tissue (chronic hepatitis C)
hsa-miR-100-3p Gemcitabine 60750 NSC613327 approved sensitive cell line (MDA-231)
hsa-miR-100-3p Paclitaxel 36314 NSC125973 approved sensitive cell line (PC3PR20)
hsa-miR-100-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)

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