miRTarBase - #MIRT255970


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pre-miRNA Information
pre-miRNA hsa-mir-539   
Genomic Coordinates chr14: 101047321 - 101047398
Synonyms MIRN539, hsa-mir-539, MIR539
Description Homo sapiens miR-539 stem-loop
Comment None
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-539-3p
Sequence 49| AUCAUACAAGGACAAUUUCUUU |70
Evidence Not_experimental
Experiments
Editing Events in miRNAs
Modification Type Position on miR Chromosome DNA Strand Genomic Position (hg38) List of PMIDs Variant details
A-to-I 9 14 + 101047377 29233923 MiREDiBase
A-to-I 14 14 + 101047382 29233923 MiREDiBase
A-to-I 15 14 + 101047383 29233923 MiREDiBase
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1163834397 1 dbSNP
rs1249640746 2 dbSNP
rs766009913 2 dbSNP
rs1387109177 3 dbSNP
rs760174615 6 dbSNP
rs755069688 7 dbSNP
rs769402130 12 dbSNP
rs775176241 22 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol WDR17   
Synonyms -
Description WD repeat domain 17
Transcript NM_170710   
Other Transcripts NM_181265   
Expression
Putative miRNA Targets on WDR17
3'UTR of WDR17
(miRNA target sites are highlighted)		 
>WDR17|NM_170710|3'UTR
   1 TAGAAGATTTTTGTCCATGCTTGATTTTTTTTTTTAAAGAAAAACTTTCATGGGTTAGCATTACCTTAATCTTTGTTGCT
  81 CAAGTGCCAGAGGTTGGGAGAAGGATTGCAGGTTGGGAGAGGTGGGAAATAGCAGTGAATTTTAGTCATTAACTTCAAAA
 161 TATATATATATATATAATTTAAAGGAAAAATAGGTGCCTCCTTTATAAACAGTAATAGCTACGTTTGGGAAGGAGGAAAC
 241 ATTTAAATTATAAAGGACTGAATAATCTAAAAAGCATATAAAAGTTTCACACAGCATAAAAGATACCAAAATATCATATG
 321 GTTGAAATATTGAAACATATTAAATTGTGCAACACCTAGAATAGTGCTAGACATACAGTAAGTACTTAATGGATATTTGA
 401 ATGATTGAATATCTTGAAATGTTGAAATGTAAGGTGTGCACAGTGATCTTCAACTTAACAAACACTTACGTTCTCCTTTA
 481 TAAAATGCATAGTAAACCACTAACGTTAGCTGTTTTAATAAAAGTTTTCAGTTATAAGTTTAGTAAATATTAATAAATGG
 561 ATACACATTCAAAATACTTTTAAAAAAAAGAAAATGTTACCAGTTTTTTTATCTGAAGTTTAACTGTCCCATTGTAAAGG
 641 TGTAAGTTATATAGGCTTGAAAAAAATTGGCGGGTAAAAATCACAAAATGCAGTCGAATATATATATGAAAACTTGCATT
 721 AGGTGATAAAGTGACTATTTTAAGAGATTCAGCATGCATGGATATTAGTTTTGATTAATGTGTACAATAATTTACACAGT
 801 ATACTCTAGTCAATTTATGTTAACTTTATTTAAAACACAATTTATTTGGCCGGGCACGGTGGCTCACACCTGTAATCTCA
 881 GCACTTTGGCAGGCCAAGGCAGGTGGATCACCTGAGGTCAGGAGTTCATGACCAGCCTGGCCAGCATGGTAAAACCCTGT
 961 CTCCACTAAAAATACAAAAATTAGCCAGGCATGGTGGCGGGCACCTGTAATCCCAGTTACTTGGGAAGCTGAGGCAGGAG
1041 AATCCCTTGAACCTGGGAGGCAGAGGTTCCAGTGAGCCAAGATCGCACCACTGCACTCCAGCCTGGGCAACAAAGAGCGA
1121 AACTCTGTCTCAAAAAACAAACCAACAAAAACCACAATTGATTTGATGAAAATTAGTTTTAAGTAAATGTTTGTAAATAG
1201 ATATTGGTTGAATTTTTGGATATATTATGTTGATTTAACTTTTAAAATGTTGTTTAAAAGTGTGAAGCTATGAAAAGCCT
1281 GATAATGTGACTACAGATATTTCAGTTGGACTAGAATTCTGACTTTGAAACTTATTAAATTAATGCATACTGGAAGTACT
1361 TTGATACTCAAGTTGTTTCACAAGATTTATAATATAGATGGTTTTGTTTGACTAAAGAATAATCTCATATAACTAGAATA
1441 CTTGTGGCTTTTATTATCTTTAAACTTGTTGCATTTAAAATATTTTTAAAACCTTCTTAACAAAACTTCTTAAAACTGGA
1521 AAAAATATATATTATGTATCTATGTATCATATTTATCACATGACCACTTTTGATTCCTTAAAAAGACATTACAGGCTTAA
1601 ATTCCATTTTATTAAAAAAAAAAAATTGCCTGTAATCCCAGCACTTCAGGAGGCCGAGATGGGCAGATCTTGAGGTCGGT
1681 AGATGGAGACCATCCTGGCCAACATGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCTGGGTGTGGTGGTGTGT
1761 ACCTGTAGTCCCAGCTACCCAGGAAGCTAAGGCAGGAGAATCGCTTGAATCCAGGAGGCGGAGGTTGCAGTGAGCTGAGA
1841 TCGCACTACTGCACTCCAGCCTGGGCGACAGAGCAAGACCACCATCTCCAAAAATTATATATATAAAAATAATTAATATT
1921 ATAGAAGAGAATATACACAACTCAGAGATGCAATGGATAATATAAAAAGAGTACCTGAGATGTATTTTTTTAAACTCTTA
2001 GAGATATCTGTAACTCAAATTTTTCTTAGGTGAGGAGGATTATTAACTGGCACATATGTACTAAAAACCCCTCACTTAAA
2081 AATGGCAGTCTCAATCCTACTGTCATTCTTTTTATTTTAAAATAAATAAATAAGCCTATCTTTTTGTGCTTACATACTTA
2161 AAAGGATATCATTAAGTATATAAACAATCATTACTTCTGTATTTTTAATGAATGCAGGAAAATAATATTTTTATGTATAA
2241 AAGATGAAGAAAAAATTTTGCAAGTCTTTAAGCACATAAATACAACAGAATAGCCACCCAATTTCTGTCTGAAATCTAAA
2321 TTGGATGGATTTGACCATCATTCTATTATCTTTGATTTCTACAATGTCTATATCTTATTACCTATAACTATTAATTTTTC
2401 ATAGAATTATAAATGTCATTTGACTATGTCAATCTGTATATATTGTACCTTAATATGAAAAACAAATTTTTTAATTCATA
2481 AAAGTATTTTTATTAGATTTCATATGCATGAAACCCAAGCAAATTATATGAATTTATTTTACTATTTGAAAATGTTCATA
2561 TTACCAATAATGTGGACAAATTACTTTGCAGGTTTAAATATGCCTCTGTAAAGGAAGAGTCTCATTAGACAATGATTTTT
2641 AAAGCATTGGAAAAATATTTTGCCTGTAAAAGTTAGTAACTAGGTGGTTCACAAAATTACAACATCAAAATAGTTACATC
2721 TTGTGAAAATATATGATTTTTATGTCAATCAAGACAAATGAAATATATATGTATGTGTATATATATACATGTATGTATGA
2801 AATATATATATGTGCGTGTGTGTGTGTATATATATATATATATATATATATTTCTATGAAATTGTCCAGATGTGTTCAGG
2881 AACATGATTGCATTAGAGCAATGACTGTATTTTGTTGTCCTTATAACATTTATATTATTTCAGTTTTAAGTCAAAAGGTA
2961 TTCTGAATATAATAAAAGCCTCACAAATTATTTGTAAAATTTAGTAGTTCATATTTAGTATATCAGTAATATAGAAGACA
3041 TCTTTATAGTCAACTCTTAATTAATGCTTATTGTACCAAATCTTTGAGATATTTGTACATAAATGAAATATGTACTTTCA
3121 TGCTAAAATTATATATCATGACTGTGCTATAATTTGGCATGTCATTATCTAGATTTATATGTATGTACGTATTTCAGGTC
3201 CTTGAAATTTTAATAAATATTACAGTTAAATCCTGATATGACATAGTTAAAAAAAAA
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' uuUCUUUA---ACAGGAACAUACUa 5'
            | | ||   |||   ||||||| 
Target 5' atATATATACATGT--ATGTATGAa 3'
 2779 - 2801 144.00 -6.90
2 
miRNA  3' uuuCUUUAACAGGAACAUACua 5'
             |||| | | : ||||||  
Target 5' aatGAAA-TATATATGTATGtg 3'
 2757 - 2777 134.00 -5.70
3 
miRNA  3' uuUCUUUAACAGGAACAUACUa 5'
            | |:|| || :|||| ||| 
Target 5' atATAGATGGT-TTTGTTTGAc 3'
 1392 - 1412 131.00 -6.00
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30535691 12 COSMIC
COSN5854173 14 COSMIC
COSN29972241 17 COSMIC
COSN30156230 22 COSMIC
COSN30522611 24 COSMIC
COSN31525067 32 COSMIC
COSN1292189 36 COSMIC
COSN30504108 36 COSMIC
COSN15662945 37 COSMIC
COSN31496635 50 COSMIC
COSN30191131 59 COSMIC
COSN30500966 59 COSMIC
COSN30127650 67 COSMIC
COSN512137 91 COSMIC
COSN28189777 93 COSMIC
COSN30184201 123 COSMIC
COSN30160781 131 COSMIC
COSN30389143 161 COSMIC
COSN23359142 176 COSMIC
COSN28053128 177 COSMIC
COSN21365541 524 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs751924370 1 dbSNP
rs767963143 2 dbSNP
rs752218414 4 dbSNP
rs1185677569 5 dbSNP
rs1367772224 6 dbSNP
rs34844679 8 dbSNP
rs1416193832 16 dbSNP
rs755556399 18 dbSNP
rs1295034613 19 dbSNP
rs1391082845 21 dbSNP
rs1433884484 24 dbSNP
rs531364220 25 dbSNP
rs759241513 25 dbSNP
rs770632200 25 dbSNP
rs777335126 26 dbSNP
rs538594822 31 dbSNP
rs1305358657 32 dbSNP
rs1271859663 36 dbSNP
rs1435134717 36 dbSNP
rs974200995 37 dbSNP
rs1320413748 45 dbSNP
rs1247529074 50 dbSNP
rs756901823 51 dbSNP
rs778603921 53 dbSNP
rs911954192 63 dbSNP
rs944878699 64 dbSNP
rs1036493679 65 dbSNP
rs915955016 66 dbSNP
rs1298774929 76 dbSNP
rs1463622238 80 dbSNP
rs558518863 81 dbSNP
rs930889670 107 dbSNP
rs981400060 109 dbSNP
rs1245929340 110 dbSNP
rs1170075365 111 dbSNP
rs928929726 112 dbSNP
rs1396700242 114 dbSNP
rs1048071631 116 dbSNP
rs1453670645 118 dbSNP
rs754639340 132 dbSNP
rs1178363145 139 dbSNP
rs1479380450 150 dbSNP
rs1053723577 151 dbSNP
rs62339456 153 dbSNP
rs1349011557 157 dbSNP
rs1347746882 160 dbSNP
rs148615406 160 dbSNP
rs895525878 160 dbSNP
rs947519784 162 dbSNP
rs1171632912 165 dbSNP
rs1426128114 168 dbSNP
rs1038804915 171 dbSNP
rs541034999 172 dbSNP
rs997219710 176 dbSNP
rs1433872873 179 dbSNP
rs1439184586 183 dbSNP
rs1032907603 195 dbSNP
rs1051428261 217 dbSNP
rs748469804 219 dbSNP
rs1217556181 224 dbSNP
rs1486421618 236 dbSNP
rs1255003890 243 dbSNP
rs1209093440 251 dbSNP
rs1485580823 252 dbSNP
rs190643815 256 dbSNP
rs1241854730 257 dbSNP
rs1016569616 265 dbSNP
rs966152131 278 dbSNP
rs80255541 291 dbSNP
rs371725388 295 dbSNP
rs1023036847 304 dbSNP
rs926842075 307 dbSNP
rs1451608220 310 dbSNP
rs1363182371 311 dbSNP
rs937009521 312 dbSNP
rs1475907219 314 dbSNP
rs1415140725 315 dbSNP
rs970113575 321 dbSNP
rs543224531 322 dbSNP
rs7699964 331 dbSNP
rs1207280761 337 dbSNP
rs1485155546 341 dbSNP
rs1260656407 350 dbSNP
rs895586879 354 dbSNP
rs1214336531 365 dbSNP
rs1013989954 368 dbSNP
rs1041967408 373 dbSNP
rs771092594 374 dbSNP
rs989096913 382 dbSNP
rs914769876 384 dbSNP
rs1162929004 387 dbSNP
rs1326785368 389 dbSNP
rs1414950303 394 dbSNP
rs1380349729 396 dbSNP
rs903040049 403 dbSNP
rs1326518527 406 dbSNP
rs1407495949 410 dbSNP
rs1157382310 417 dbSNP
rs1391696257 420 dbSNP
rs571878027 421 dbSNP
rs1360378018 422 dbSNP
rs1401162971 432 dbSNP
rs181785531 442 dbSNP
rs1032938586 455 dbSNP
rs1247935840 457 dbSNP
rs1427121945 457 dbSNP
rs1194876151 460 dbSNP
rs540094249 464 dbSNP
rs1271404887 466 dbSNP
rs1007605524 470 dbSNP
rs367953979 471 dbSNP
rs1253304705 475 dbSNP
rs1356768739 480 dbSNP
rs879357148 482 dbSNP
rs1039214382 487 dbSNP
rs1304021730 488 dbSNP
rs921721204 492 dbSNP
rs1368724106 493 dbSNP
rs1324586404 499 dbSNP
rs933040034 503 dbSNP
rs1283625234 504 dbSNP
rs1051458871 505 dbSNP
rs1165850297 506 dbSNP
rs1460783681 511 dbSNP
rs1389990956 516 dbSNP
rs1352821041 520 dbSNP
rs1455928632 535 dbSNP
rs1018938552 536 dbSNP
rs187251412 539 dbSNP
rs1004915467 550 dbSNP
rs972192144 578 dbSNP
rs1288215655 581 dbSNP
rs1252917266 582 dbSNP
rs565575966 583 dbSNP
rs1341164098 595 dbSNP
rs899067562 597 dbSNP
rs1236257456 600 dbSNP
rs984884283 601 dbSNP
rs1274195620 604 dbSNP
rs926915515 604 dbSNP
rs527651225 610 dbSNP
rs1326409295 611 dbSNP
rs1390511744 615 dbSNP
rs1012074189 619 dbSNP
rs1055894847 621 dbSNP
rs916902279 631 dbSNP
rs949730226 643 dbSNP
rs1023406705 650 dbSNP
rs1365652527 653 dbSNP
rs1179772664 658 dbSNP
rs1482827187 660 dbSNP
rs776106346 660 dbSNP
rs533862393 672 dbSNP
rs567400382 673 dbSNP
rs1484600725 674 dbSNP
rs1224310331 676 dbSNP
rs878919114 676 dbSNP
rs1002925612 677 dbSNP
rs1352186963 686 dbSNP
rs1277216888 689 dbSNP
rs1049251961 690 dbSNP
rs1227280609 693 dbSNP
rs1473902141 694 dbSNP
rs530167068 697 dbSNP
rs1416999030 698 dbSNP
rs1374100147 701 dbSNP
rs1380105378 705 dbSNP
rs1420803428 714 dbSNP
rs1161012229 724 dbSNP
rs956069668 725 dbSNP
rs1401741268 737 dbSNP
rs115120443 738 dbSNP
rs1412313376 739 dbSNP
rs1472319536 743 dbSNP
rs1418821422 748 dbSNP
rs1190382152 749 dbSNP
rs531182754 757 dbSNP
rs1340630850 761 dbSNP
rs1236742172 774 dbSNP
rs772229922 778 dbSNP
rs1216253646 779 dbSNP
rs974933429 787 dbSNP
rs1448594669 801 dbSNP
rs1282100730 808 dbSNP
rs1054288364 809 dbSNP
rs778575162 814 dbSNP
rs1294708548 815 dbSNP
rs1007463951 818 dbSNP
rs933448792 828 dbSNP
rs1375917775 838 dbSNP
rs1240757926 841 dbSNP
rs1231140644 845 dbSNP
rs987219855 852 dbSNP
rs372202968 853 dbSNP
rs145695402 859 dbSNP
rs966084365 860 dbSNP
rs1199877834 864 dbSNP
rs993870896 866 dbSNP
rs1456748313 879 dbSNP
rs1444297095 883 dbSNP
rs1167354376 885 dbSNP
rs1197024682 894 dbSNP
rs1237918117 900 dbSNP
rs1440747694 903 dbSNP
rs1037768562 904 dbSNP
rs1186846915 906 dbSNP
rs899105509 913 dbSNP
rs1476282186 917 dbSNP
rs1240260307 923 dbSNP
rs538828778 943 dbSNP
rs558529256 946 dbSNP
rs1468533258 950 dbSNP
rs1274447486 951 dbSNP
rs1211287594 959 dbSNP
rs1044930967 967 dbSNP
rs769471168 969 dbSNP
rs773259325 974 dbSNP
rs1376499184 984 dbSNP
rs1003292322 995 dbSNP
rs1035786836 999 dbSNP
rs565982492 1000 dbSNP
rs891867539 1001 dbSNP
rs1435085631 1003 dbSNP
rs534574845 1005 dbSNP
rs1171423975 1006 dbSNP
rs1402323897 1008 dbSNP
rs1349463803 1011 dbSNP
rs984956304 1018 dbSNP
rs1411415025 1030 dbSNP
rs766024476 1049 dbSNP
rs1022028834 1064 dbSNP
rs1167864961 1071 dbSNP
rs1454611699 1071 dbSNP
rs1033794074 1075 dbSNP
rs1191158216 1082 dbSNP
rs1487903056 1083 dbSNP
rs554635519 1085 dbSNP
rs574572221 1086 dbSNP
rs751066413 1096 dbSNP
rs954865040 1108 dbSNP
rs1309620585 1109 dbSNP
rs987627204 1114 dbSNP
rs907653453 1119 dbSNP
rs940416237 1120 dbSNP
rs1306295567 1130 dbSNP
rs1217523804 1132 dbSNP
rs973122110 1134 dbSNP
rs1298951717 1135 dbSNP
rs1329220570 1138 dbSNP
rs1307140283 1149 dbSNP
rs1232474066 1154 dbSNP
rs1435130262 1155 dbSNP
rs543582995 1159 dbSNP
rs1275476429 1160 dbSNP
rs888934474 1164 dbSNP
rs190917655 1168 dbSNP
rs1217001579 1173 dbSNP
rs1353691775 1180 dbSNP
rs556715341 1183 dbSNP
rs759276615 1184 dbSNP
rs947700719 1186 dbSNP
rs576515187 1202 dbSNP
rs1250655522 1205 dbSNP
rs1486230458 1210 dbSNP
rs1208720734 1213 dbSNP
rs1283050375 1213 dbSNP
rs1200836953 1214 dbSNP
rs1040300401 1228 dbSNP
rs1225573205 1229 dbSNP
rs182486725 1231 dbSNP
rs565410566 1240 dbSNP
rs551305849 1243 dbSNP
rs1377119396 1244 dbSNP
rs745360213 1248 dbSNP
rs1481165660 1253 dbSNP
rs1345719636 1256 dbSNP
rs1160604360 1268 dbSNP
rs1471336096 1282 dbSNP
rs1168088520 1288 dbSNP
rs1410737992 1297 dbSNP
rs572725314 1307 dbSNP
rs188001711 1309 dbSNP
rs111533637 1314 dbSNP
rs1299624607 1315 dbSNP
rs1033699393 1329 dbSNP
rs1483188491 1335 dbSNP
rs891904480 1336 dbSNP
rs1218016087 1348 dbSNP
rs1386118309 1351 dbSNP
rs1267738881 1368 dbSNP
rs1327215531 1368 dbSNP
rs1234196551 1369 dbSNP
rs1357618903 1370 dbSNP
rs1310233022 1378 dbSNP
rs1395271781 1384 dbSNP
rs530127385 1394 dbSNP
rs376967772 1409 dbSNP
rs992703771 1413 dbSNP
rs1455157162 1418 dbSNP
rs904544519 1420 dbSNP
rs996142968 1423 dbSNP
rs1165176767 1428 dbSNP
rs1324177328 1430 dbSNP
rs549813182 1432 dbSNP
rs954936659 1440 dbSNP
rs563810893 1441 dbSNP
rs114039266 1442 dbSNP
rs1398298307 1446 dbSNP
rs1277648026 1451 dbSNP
rs1423650572 1455 dbSNP
rs1015494124 1469 dbSNP
rs967363674 1485 dbSNP
rs1191129645 1488 dbSNP
rs1247434702 1493 dbSNP
rs962207467 1493 dbSNP
rs1214403053 1499 dbSNP
rs1337174399 1506 dbSNP
rs973578121 1508 dbSNP
rs1243766959 1510 dbSNP
rs920305830 1515 dbSNP
rs1229913798 1517 dbSNP
rs369607529 1529 dbSNP
rs980397197 1550 dbSNP
rs1264005597 1556 dbSNP
rs1297628534 1557 dbSNP
rs1432880507 1561 dbSNP
rs927925595 1575 dbSNP
rs552372857 1580 dbSNP
rs1442496433 1593 dbSNP
rs1052308285 1606 dbSNP
rs913739829 1611 dbSNP
rs1448132974 1614 dbSNP
rs1457719002 1614 dbSNP
rs397996374 1614 dbSNP
rs70962454 1614 dbSNP
rs377252604 1615 dbSNP
rs943219173 1616 dbSNP
rs1040607722 1625 dbSNP
rs1265492698 1626 dbSNP
rs901790420 1627 dbSNP
rs1261867192 1648 dbSNP
rs1477922442 1649 dbSNP
rs929199609 1656 dbSNP
rs1043540932 1657 dbSNP
rs1225902860 1660 dbSNP
rs1341316678 1661 dbSNP
rs904598426 1664 dbSNP
rs996216443 1665 dbSNP
rs1322462454 1673 dbSNP
rs1366480314 1678 dbSNP
rs1050396880 1679 dbSNP
rs890740494 1682 dbSNP
rs1310196215 1690 dbSNP
rs1009577135 1696 dbSNP
rs1428247452 1699 dbSNP
rs1015151975 1703 dbSNP
rs962524382 1706 dbSNP
rs887795267 1708 dbSNP
rs994982772 1714 dbSNP
rs1027396029 1715 dbSNP
rs1055145972 1717 dbSNP
rs1376049232 1720 dbSNP
rs182536731 1722 dbSNP
rs1419821058 1729 dbSNP
rs1254279718 1730 dbSNP
rs980429725 1740 dbSNP
rs927622884 1741 dbSNP
rs112787009 1753 dbSNP
rs988484708 1757 dbSNP
rs1280952293 1773 dbSNP
rs1202168087 1774 dbSNP
rs913781468 1776 dbSNP
rs1342804137 1777 dbSNP
rs946574385 1788 dbSNP
rs373328714 1796 dbSNP
rs967015841 1797 dbSNP
rs1337112840 1799 dbSNP
rs1384105862 1802 dbSNP
rs1286123669 1803 dbSNP
rs1043561240 1804 dbSNP
rs1370402649 1807 dbSNP
rs1314006775 1812 dbSNP
rs1416596749 1819 dbSNP
rs1172027030 1820 dbSNP
rs926048877 1820 dbSNP
rs868801043 1821 dbSNP
rs777981973 1824 dbSNP
rs1180379374 1825 dbSNP
rs1250089899 1837 dbSNP
rs1465417933 1838 dbSNP
rs187241795 1841 dbSNP
rs1255431532 1843 dbSNP
rs1008860234 1844 dbSNP
rs1166724810 1845 dbSNP
rs1368843430 1846 dbSNP
rs1037030840 1848 dbSNP
rs1156538839 1849 dbSNP
rs552768098 1854 dbSNP
rs1457352048 1858 dbSNP
rs1345140585 1861 dbSNP
rs1265845111 1863 dbSNP
rs995455204 1865 dbSNP
rs989774324 1866 dbSNP
rs775497786 1867 dbSNP
rs142849894 1868 dbSNP
rs556742938 1871 dbSNP
rs151090716 1873 dbSNP
rs1249666196 1876 dbSNP
rs1226889542 1880 dbSNP
rs538834660 1882 dbSNP
rs960657544 1883 dbSNP
rs1203181533 1886 dbSNP
rs1254315131 1887 dbSNP
rs1157056751 1890 dbSNP
rs1484242253 1890 dbSNP
rs1183562011 1896 dbSNP
rs1456850489 1900 dbSNP
rs987815464 1901 dbSNP
rs113784513 1902 dbSNP
rs1164732399 1903 dbSNP
rs771563475 1905 dbSNP
rs559141028 1907 dbSNP
rs967972053 1914 dbSNP
rs1193893065 1918 dbSNP
rs1465851143 1932 dbSNP
rs1413810803 1935 dbSNP
rs199656685 1953 dbSNP
rs1335027896 1960 dbSNP
rs1457434411 1965 dbSNP
rs1170891197 1970 dbSNP
rs771147721 1972 dbSNP
rs1424797283 1981 dbSNP
rs1356937904 1985 dbSNP
rs1457977865 1992 dbSNP
rs1436393920 1993 dbSNP
rs1161565414 1996 dbSNP
rs192162889 2000 dbSNP
rs768731399 2000 dbSNP
rs909101146 2008 dbSNP
rs921111626 2013 dbSNP
rs200723146 2015 dbSNP
rs200768932 2016 dbSNP
rs201339377 2017 dbSNP
rs59672479 2026 dbSNP
rs1316987979 2030 dbSNP
rs185582114 2031 dbSNP
rs1168295432 2044 dbSNP
rs1451179831 2048 dbSNP
rs944738969 2054 dbSNP
rs1014075294 2060 dbSNP
rs1253757261 2069 dbSNP
rs1468571485 2070 dbSNP
rs1248093953 2071 dbSNP
rs1046584193 2076 dbSNP
rs1450702940 2081 dbSNP
rs1289534223 2086 dbSNP
rs1036362700 2089 dbSNP
rs1244715024 2102 dbSNP
rs543813008 2103 dbSNP
rs999660152 2107 dbSNP
rs4536876 2108 dbSNP
rs879065941 2110 dbSNP
rs1380762377 2115 dbSNP
rs1420819691 2119 dbSNP
rs1295490198 2120 dbSNP
rs1434508121 2120 dbSNP
rs1049275339 2123 dbSNP
rs1358684536 2124 dbSNP
rs1011280758 2128 dbSNP
rs1466714345 2139 dbSNP
rs905389431 2146 dbSNP
rs1017673672 2151 dbSNP
rs1167925033 2155 dbSNP
rs1002290671 2156 dbSNP
rs1426592700 2158 dbSNP
rs1454324296 2158 dbSNP
rs1338996306 2171 dbSNP
rs1477470772 2177 dbSNP
rs1233123589 2178 dbSNP
rs1206286503 2179 dbSNP
rs1484265463 2180 dbSNP
rs1273104892 2184 dbSNP
rs142527438 2185 dbSNP
rs896232221 2188 dbSNP
rs1303417284 2191 dbSNP
rs976253946 2195 dbSNP
rs1446593017 2209 dbSNP
rs1332469154 2211 dbSNP
rs1289270403 2215 dbSNP
rs1399232538 2221 dbSNP
rs1307199434 2239 dbSNP
rs28624748 2241 dbSNP
rs4276243 2244 dbSNP
rs1173282768 2249 dbSNP
rs1413460645 2255 dbSNP
rs1412215374 2256 dbSNP
rs1183986802 2259 dbSNP
rs1298510900 2261 dbSNP
rs968088149 2266 dbSNP
rs909174823 2275 dbSNP
rs1223723723 2284 dbSNP
rs1181913876 2296 dbSNP
rs1483841488 2307 dbSNP
rs528392685 2308 dbSNP
rs941947320 2317 dbSNP
rs1258306664 2320 dbSNP
rs1264680834 2321 dbSNP
rs1456173877 2331 dbSNP
rs1055078428 2334 dbSNP
rs115134463 2346 dbSNP
rs1268999398 2371 dbSNP
rs1230404418 2378 dbSNP
rs146913425 2385 dbSNP
rs147950681 2397 dbSNP
rs986623766 2404 dbSNP
rs902557056 2405 dbSNP
rs912002733 2408 dbSNP
rs1301056984 2409 dbSNP
rs1381228283 2409 dbSNP
rs944791464 2418 dbSNP
rs764615446 2424 dbSNP
rs1160758817 2427 dbSNP
rs550577022 2433 dbSNP
rs1410808954 2434 dbSNP
rs1158771898 2441 dbSNP
rs1424803832 2447 dbSNP
rs919279227 2449 dbSNP
rs1480835688 2450 dbSNP
rs1180691178 2460 dbSNP
rs1248654534 2467 dbSNP
rs930623563 2467 dbSNP
rs1210710149 2475 dbSNP
rs1049306284 2484 dbSNP
rs1245208640 2486 dbSNP
rs1267794972 2486 dbSNP
rs1323355874 2501 dbSNP
rs1053951132 2511 dbSNP
rs1227615443 2527 dbSNP
rs570436927 2534 dbSNP
rs894090829 2541 dbSNP
rs1465316155 2555 dbSNP
rs1365844609 2556 dbSNP
rs905421964 2559 dbSNP
rs184321802 2561 dbSNP
rs938219044 2568 dbSNP
rs1432289892 2569 dbSNP
rs1056537255 2575 dbSNP
rs1293789507 2577 dbSNP
rs1007127823 2580 dbSNP
rs1370618025 2582 dbSNP
rs1163130422 2584 dbSNP
rs1018502725 2588 dbSNP
rs1391353936 2590 dbSNP
rs896252327 2599 dbSNP
rs1356677451 2604 dbSNP
rs1434905996 2609 dbSNP
rs754169755 2624 dbSNP
rs1210726125 2630 dbSNP
rs1009330162 2632 dbSNP
rs544908293 2633 dbSNP
rs1021098891 2635 dbSNP
rs1263387192 2638 dbSNP
rs1030499942 2639 dbSNP
rs950469539 2648 dbSNP
rs1366275566 2667 dbSNP
rs983284063 2671 dbSNP
rs1299796963 2678 dbSNP
rs903520337 2685 dbSNP
rs1000499457 2692 dbSNP
rs1363908316 2699 dbSNP
rs1301519388 2705 dbSNP
rs1388090132 2707 dbSNP
rs1388175982 2715 dbSNP
rs1028277325 2718 dbSNP
rs1284658679 2721 dbSNP
rs963289349 2723 dbSNP
rs991163248 2729 dbSNP
rs1217669094 2734 dbSNP
rs1273406589 2736 dbSNP
rs1309086192 2741 dbSNP
rs766591274 2741 dbSNP
rs1219261153 2745 dbSNP
rs953941704 2745 dbSNP
rs1447720118 2753 dbSNP
rs916473630 2754 dbSNP
rs1008087776 2756 dbSNP
rs1435085998 2756 dbSNP
rs949416244 2756 dbSNP
rs1490493389 2759 dbSNP
rs1265560937 2763 dbSNP
rs1201617935 2768 dbSNP
rs1483281033 2769 dbSNP
rs1019431450 2776 dbSNP
rs924055539 2778 dbSNP
rs982130979 2778 dbSNP
rs961475452 2780 dbSNP
rs1234815076 2789 dbSNP
rs558880808 2789 dbSNP
rs919297391 2792 dbSNP
rs1300219532 2794 dbSNP
rs1404717189 2799 dbSNP
rs1310256020 2802 dbSNP
rs1351550702 2802 dbSNP
rs935389904 2811 dbSNP
rs572255644 2812 dbSNP
rs893994324 2814 dbSNP
rs1376100824 2816 dbSNP
rs1477596646 2816 dbSNP
rs984749881 2817 dbSNP
rs1422071157 2820 dbSNP
rs1040366264 2821 dbSNP
rs901387826 2823 dbSNP
rs926899137 2824 dbSNP
rs1179751619 2825 dbSNP
rs1279310204 2825 dbSNP
rs1437115313 2825 dbSNP
rs1201646831 2827 dbSNP
rs1414498558 2827 dbSNP
rs141549868 2827 dbSNP
rs1421407789 2827 dbSNP
rs145018965 2827 dbSNP
rs34628181 2827 dbSNP
rs35664882 2827 dbSNP
rs71597424 2827 dbSNP
rs771602873 2827 dbSNP
rs778536707 2827 dbSNP
rs869254346 2827 dbSNP
rs997632443 2827 dbSNP
rs62339457 2829 dbSNP
rs1366670471 2830 dbSNP
rs201074600 2831 dbSNP
rs1001262467 2833 dbSNP
rs868059320 2835 dbSNP
rs1398979907 2837 dbSNP
rs1270466819 2838 dbSNP
rs1363806437 2843 dbSNP
rs1241914985 2844 dbSNP
rs1208845637 2858 dbSNP
rs757667841 2874 dbSNP
rs1265904992 2883 dbSNP
rs945496468 2884 dbSNP
rs1350487950 2885 dbSNP
rs141826264 2900 dbSNP
rs990635753 2906 dbSNP
rs1381230766 2912 dbSNP
rs903598235 2924 dbSNP
rs1000573052 2928 dbSNP
rs1283937650 2930 dbSNP
rs1488033026 2931 dbSNP
rs111263399 2947 dbSNP
rs1318863804 2951 dbSNP
rs1399887010 2959 dbSNP
rs574812774 2968 dbSNP
rs1164790536 2977 dbSNP
rs1471748325 2980 dbSNP
rs1384555235 3002 dbSNP
rs1244121705 3006 dbSNP
rs34617901 3007 dbSNP
rs935293588 3013 dbSNP
rs1245807399 3015 dbSNP
rs1214705243 3019 dbSNP
rs188457331 3020 dbSNP
rs115774508 3021 dbSNP
rs1212037515 3025 dbSNP
rs961240019 3026 dbSNP
rs994375513 3027 dbSNP
rs1026435409 3032 dbSNP
rs1186537133 3033 dbSNP
rs1229227825 3041 dbSNP
rs952110196 3051 dbSNP
rs375856093 3057 dbSNP
rs942863359 3062 dbSNP
rs1430201517 3069 dbSNP
rs1039872950 3072 dbSNP
rs1325227667 3074 dbSNP
rs1422565615 3083 dbSNP
rs1261925967 3085 dbSNP
rs922881946 3087 dbSNP
rs984782538 3093 dbSNP
rs1318405788 3099 dbSNP
rs1450775059 3109 dbSNP
rs1387724821 3112 dbSNP
rs1185434862 3116 dbSNP
rs1478127833 3122 dbSNP
rs926637466 3131 dbSNP
rs1445392615 3133 dbSNP
rs886124878 3133 dbSNP
rs1448390937 3134 dbSNP
rs546328378 3136 dbSNP
rs1037423046 3156 dbSNP
rs559889577 3157 dbSNP
rs1383312060 3158 dbSNP
rs1344945737 3178 dbSNP
rs1270925202 3188 dbSNP
rs528256035 3189 dbSNP
rs137860392 3190 dbSNP
rs1276869479 3194 dbSNP
rs918128891 3199 dbSNP
rs945598408 3203 dbSNP
rs1344699895 3204 dbSNP
rs1308424441 3207 dbSNP
rs1431478448 3212 dbSNP
rs1352718251 3214 dbSNP
rs1169072842 3222 dbSNP
rs181077179 3234 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HEK293
Disease 116966.0
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... "HITS-CLIP data was present in GSM714642. RNA binding protein: AGO2. Condition:completeT1 ...

- Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods.

Article - Kishore S; Jaskiewicz L; Burger L; Hausser et al.
- Nature methods, 2011
Cross-linking and immunoprecipitation (CLIP) is increasingly used to map transcriptome-wide binding sites of RNA-binding proteins. We developed a method for CLIP data analysis, and applied it to compare CLIP with photoactivatable ribonucleoside-enhanced CLIP (PAR-CLIP) and to uncover how differences in cross-linking and ribonuclease digestion affect the identified sites. We found only small differences in accuracies of these methods in identifying binding sites of HuR, which binds low-complexity sequences, and Argonaute 2, which has a complex binding specificity. We found that cross-link-induced mutations led to single-nucleotide resolution for both PAR-CLIP and CLIP. Our results confirm the expectation from original CLIP publications that RNA-binding proteins do not protect their binding sites sufficiently under the denaturing conditions used during the CLIP procedure, and we show that extensive digestion with sequence-specific RNases strongly biases the recovered binding sites. This bias can be substantially reduced by milder nuclease digestion conditions.
LinkOut: [PMID: 21572407]
CLIP-seq Support 1 for dataset GSM714642
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repA
Location of target site ENST00000393643.2 | 3UTR | AUAUAUGUAUGUGUAUAUAUAUACAUGUAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
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
65 hsa-miR-539-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT102192 NAPEPLD N-acyl phosphatidylethanolamine phospholipase D 2 4
MIRT147308 KPNA2 karyopherin subunit alpha 2 2 8
MIRT255970 WDR17 WD repeat domain 17 2 2
MIRT318225 RREB1 ras responsive element binding protein 1 2 4
MIRT339123 ARID1A AT-rich interaction domain 1A 2 2
MIRT341161 HNRNPC heterogeneous nuclear ribonucleoprotein C (C1/C2) 2 2
MIRT439452 TMED10 transmembrane p24 trafficking protein 10 1 1
MIRT439861 PTPRS protein tyrosine phosphatase, receptor type S 1 1
MIRT440178 MTRNR2L8 MT-RNR2-like 8 1 1
MIRT440188 MTRNR2L2 MT-RNR2-like 2 1 1
MIRT440445 INTS3 integrator complex subunit 3 1 1
MIRT440771 DST dystonin 1 1
MIRT440838 DDX17 DEAD-box helicase 17 1 1
MIRT440928 CLTC clathrin heavy chain 1 1
MIRT441017 CANX calnexin 1 1
MIRT441020 CAND1 cullin associated and neddylation dissociated 1 1 1
MIRT441272 ACTR3C ARP3 actin related protein 3 homolog C 1 1
MIRT441275 ACTR3B ARP3 actin related protein 3 homolog B 1 1
MIRT446564 IDS iduronate 2-sulfatase 2 2
MIRT458674 MRI1 methylthioribose-1-phosphate isomerase 1 2 2
MIRT467486 SMIM13 small integral membrane protein 13 2 2
MIRT471515 PCGF3 polycomb group ring finger 3 2 6
MIRT488211 TESK2 testis-specific kinase 2 2 6
MIRT505413 TCF7L2 transcription factor 7 like 2 2 4
MIRT506405 NRF1 nuclear respiratory factor 1 2 4
MIRT508095 ANKRD33B ankyrin repeat domain 33B 2 4
MIRT511883 GAS1 growth arrest specific 1 2 6
MIRT513413 RTP4 receptor transporter protein 4 2 2
MIRT515814 FOCAD focadhesin 2 2
MIRT522747 LNPEP leucyl and cystinyl aminopeptidase 2 2
MIRT526664 IL5RA interleukin 5 receptor subunit alpha 2 6
MIRT532113 G6PC glucose-6-phosphatase catalytic subunit 2 2
MIRT547536 MAML3 mastermind like transcriptional coactivator 3 2 2
MIRT554605 RPS6KA5 ribosomal protein S6 kinase A5 2 2
MIRT554884 RCAN2 regulator of calcineurin 2 2 2
MIRT555859 PANK3 pantothenate kinase 3 2 2
MIRT556601 LDOC1L retrotransposon Gag like 6 2 4
MIRT565169 LINC00598 long intergenic non-protein coding RNA 598 2 2
MIRT567099 KANSL1 KAT8 regulatory NSL complex subunit 1 2 2
MIRT575032 Fasl Fas ligand (TNF superfamily, member 6) 1 1
MIRT609327 TAS2R30 taste 2 receptor member 30 2 4
MIRT609394 C11orf74 chromosome 11 open reading frame 74 2 2
MIRT613120 SRCAP Snf2 related CREBBP activator protein 2 2
MIRT614273 WSCD2 WSC domain containing 2 2 2
MIRT614988 GID4 GID complex subunit 4 homolog 2 4
MIRT619483 QSOX2 quiescin sulfhydryl oxidase 2 2 2
MIRT622061 SS18 SS18, nBAF chromatin remodeling complex subunit 2 2
MIRT627045 HOXA13 homeobox A13 2 2
MIRT657273 HS3ST3B1 heparan sulfate-glucosamine 3-sulfotransferase 3B1 2 2
MIRT658285 FASLG Fas ligand 2 3
MIRT660838 AGO3 argonaute 3, RISC catalytic component 2 2
MIRT665552 UCHL5 ubiquitin C-terminal hydrolase L5 2 2
MIRT687560 MGAT5 mannosyl (alpha-1,6-)-glycoprotein beta-1,6-N-acetyl-glucosaminyltransferase 2 2
MIRT698864 SRSF2 serine and arginine rich splicing factor 2 2 2
MIRT699509 SKIL SKI like proto-oncogene 2 2
MIRT706255 MKLN1 muskelin 1 2 2
MIRT711973 HOMER2 homer scaffolding protein 2 2 2
MIRT718038 NIPAL2 NIPA like domain containing 2 2 2
MIRT718766 ABHD15 abhydrolase domain containing 15 2 2
MIRT721319 GRHL1 grainyhead like transcription factor 1 2 2
MIRT721439 NGDN neuroguidin 2 2
MIRT721977 RAD50 RAD50 double strand break repair protein 2 2
MIRT725374 MTF2 metal response element binding transcription factor 2 2 2
MIRT737461 CTBP1 C-terminal binding protein 1 4 0
MIRT755390 Sox9 SRY-box 9 4 1
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-539 Budesonide approved 5281004 Microarray neonatal mice liver 20145010 2010 up-regulated
miR-539 17beta-estradiol (E2) approved 5757 Microarray rat breast 17700064 2007 down-regulated
miR-539 Dexamethasone approved 5743 Microarray primary rat thymocytes 20847043 2010 up-regulated
miR-539 Longevinex NULL NULL Quantitative real-time PCR ischemia/reperfusion [I/R] rat model 21203465 2011 up-regulated
miR-539 Resveratrol NULL 445154 Quantitative real-time PCR ischemia/reperfusion [I/R] rat model 21203465 2011 down-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-539 Ceritinib 57379345 NSC776422 approved resistant High Non-Small Cell Lung Cancer cell line (H3122, H2228)
hsa-mir-539 Fluorouracil 3385 NSC19893 approved resistant cell line (OE19)
hsa-mir-539 Ceritinib 57379345 NSC776422 approved resistant cell line (H3122)
hsa-miR-539-3p Ceritinib 57379345 NSC776422 approved resistant High Non-Small Cell Lung Cancer cell line (H3122, H2228)
hsa-miR-539-3p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-539-3p Osimertinib 71496458 NSC779217 approved sensitive cell line (HCC827)
hsa-miR-539-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-539-3p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-539-3p Ceritinib 57379345 NSC776422 approved resistant cell line (H3122)
hsa-miR-539-3p Docetaxel+Cisplatin+5-Fluorouracil resistant tissue (hypopharyngeal squamous cell carcinoma)

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