miRTarBase - #MIRT549032


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pre-miRNA Information
pre-miRNA hsa-mir-4540   
Genomic Coordinates chr9: 36864254 - 36864308
Description Homo sapiens miR-4540 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4540
Sequence 35| UUAGUCCUGCCUGUAGGUUUA |55
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs937122950 4 dbSNP
rs143699849 7 dbSNP
Putative Targets

Gene Information
Gene Symbol CASZ1   
Synonyms CAS11, CST, SRG, ZNF693, dJ734G22.1
Description castor zinc finger 1
Transcript NM_001079843   
Other Transcripts NM_017766   
Expression
Putative miRNA Targets on CASZ1
3'UTR of CASZ1
(miRNA target sites are highlighted)		 
>CASZ1|NM_001079843|3'UTR
   1 CGGCGCCCGCGGGTGGCCCTGGCGGCGGCCTCGGCCTCGGCCTCGGGAGCGGCGCCGCCCCGCGCGAAGCGGCCCCTGGG
  81 CAGAGCCCCGCGCCCCGCCGGTGCTTCCGGACCCCGAGTCCGTCTCAGGACAGAGGCGGGGACCCCTCTGGTGCTCCGCG
 161 GCCGAGGACACAGGCGGCGGCGGTGGCCCTGCTCTAGGGAGGCCGGGTCTCTTCAGGGAAACAGAAGGTGCTCTTGTCCC
 241 GGGGTAGGGAACCTAGGAGCAGGGGTCCCGGGCGAATGCGGCGCAGCTCCCGGCCGCTGCCCCGGCGCCCCTCCCCGCGG
 321 CCGATTCGGCCCCGCGACCATTGCTCAGGACTGGGACGGGCGCTGGGGGCCACCGGGACCCCCACCGCGCGCCACCAGGG
 401 CGGGGTGGCTCCTGGAGCCGCTGGCGGGGCCTCCCTCATGCAGCTAGGATCCTCCCCCCTGCCCAGGGGGAGACGGGCAG
 481 AAGGCAGTCAGCACGGGTGACACTACAGGGACCGTGGAGGAAGCCTCACGGGAGTAGCAGCCGCGGAGCTCCAGCTCAGC
 561 CCCACCCCAGGGCCCGGCTGCTCCCCCAGGCCTGGGTCGGGTCTGTTTGGCGACTCCCTGGCCCCAGCCTCCGCCCCAGG
 641 GAAACCGAGGCTGCGTCCAAAACCCAGAGTAGCCCGCTGGGGGCCGGGGCGGGGTCTCGGCCACCCTGGTGGTGCAAACA
 721 GGAAGGATGCGCCTGGTTTTGGCTTTAATGTTCAAAATGGAAAAAAATACAAGAAAGTTGTACAGTATTTTTCCTGTAAA
 801 GGTTATTATTCTACATAGAACAAAAAGGAAGAAAGCAGGCGTGGTGAGAGTGCAGACCCGCCTGGGCCCGGCCTGAGGTT
 881 GGAGGCTCAGTCCCGTTTATCCTGTGGGATTTGGTCCAGGGTTTTTGTAGAGGCCTTAACTGTTTGAGGCTGTCTGTCTT
 961 CACAATAGCACTGATGGGAGCTGCGTGATTCCAACTCTTAACTTGAATTTTGTAGAGACAAGAAAAAAGGACTATTACTG
1041 TTGATCCAAGTTTGTAGTTAATTTAACATTTGAGTTCTCTCTTGGTGATGCGTGTGGCTTTATAGGGCTTTTTTTTTTTT
1121 CCAGTTTGTTTTATTACTTTGTTTGGGATGCTTCTTCGCTGGTGCAGTCTACCCAGATTGGGTTCCCTTTGCAAAACATC
1201 CCCCTTCCTGGAGATGATGATGCCATCGAAGCCCGGGCCAGGGCCTGACCTGGCAGGCACACACCTGGCCAGTGGCTCTG
1281 AGGTCCCCGGGGACCGAGTCCCCTGCGAGGGCAGGCTGCCCGAGGCCACACCTGCCCACCTTCCCTACTCCAGGCCACCA
1361 GCTGGTGTCAGATTGGGCCACCGGGAGAGAACAGGCCTAGGAGGGAATGGAAGGCTGGCGGGGAGGCTGTCATCCAGAAG
1441 CCTCCTCCCCAGAGGTCTCCAGGAGGAACCTGGCTCAACTGGGGGGCAGTGGTTTACTTTTCCCTTTTTTCTTCCTTTCT
1521 TTTGTCCTCTCAGCTGCCCACAGCCAGAAAGCCAGGACCACCCGAACTGGACAGGGAGCAGGGAGGGAGGAGTGGTCGCA
1601 CGGAGCGTACCTGATTCAACAGGAAATCAGTTATTTTCTAAAACAGCCCCTACCAGAGCCTCCTGAACTCTGTGGGCACC
1681 ACGTGCTGCTGTGAGCATCTGCCCAGACAGTGACCCGCCACAGGCCCCGGGCGTCTGTGGAAGGAGTTTTGTAAAGGAAA
1761 AAAAAACACACACACACAAACATTTTTTCAATGTAGCAAAATCAAACTTAAAAAAAAAAAAGAAGAAAAGAAGAAGATGC
1841 CGACAGTGCGGAGTCTAGCCTTTTGTAAACTTCATATTGCACACTAGGACTATAAGCCATTGCTAGCTCATTTTGAATTT
1921 TAACGTGTAATTTTTGTTTTATTTTCTTTCTGTGGGGAAACAATGCTTGATCCACCAATGCTCTTTTTAATGTTTTATAA
2001 CTATGTATGTGTATATATATAAATATCAAATAATATGTATGCACATATGTGTGTGTATATATCTATATGTATATACATAT
2081 ATAGATATATAGAGATATATAGAGAGGTTTTGAGACAAAAAAAATACAGAACGTGAAACCCGAGCTGAACAGCGTGTGCT
2161 CTGATTACTTGAATCTGGTCTCCTCGGCACCTGGTTATTAAGAACTGAATATTTTTCCACTTGAATTTAGTGCTATTAGA
2241 AATTTAATATATGTGTTTTATTTATTTGATTTTTTTTTTTTTTTTTGCATGACTGATGCAAGGTTTGACATTTTCACTCA
2321 ATAAAAACTGGAAAAAAA
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' auuugGAUGUCCG-UCCUGAUu 5'
               :|:||  | ||||||| 
Target 5' tcataTTGCACACTAGGACTAt 3'
 1872 - 1893 148.00 -12.40
2 
miRNA  3' auuuggauguccgUCCUGAUu 5'
                       ||||||| 
Target 5' gagacaagaaaaaAGGACTAt 3'
 1015 - 1035 140.00 -10.89
3 
miRNA  3' auUUGGAUGUCCGUCCUGAUu 5'
            :|||  ::  |||||||: 
Target 5' gcGACCATTGCTCAGGACTGg 3'
 334 - 354 135.00 -14.50
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN28238006 89 COSMIC
COSN24404403 135 COSMIC
COSN26504911 240 COSMIC
COSN32065123 273 COSMIC
COSN8885129 278 COSMIC
COSN5997089 327 COSMIC
COSN26356652 634 COSMIC
COSN17410643 774 COSMIC
COSN15733458 788 COSMIC
COSN24297929 803 COSMIC
COSN31596874 841 COSMIC
COSN24370234 857 COSMIC
COSN24370233 858 COSMIC
COSN31551587 860 COSMIC
COSN26584868 867 COSMIC
COSN8635258 872 COSMIC
COSN31577521 877 COSMIC
COSN31490238 901 COSMIC
COSN26586556 969 COSMIC
COSN20094297 1109 COSMIC
COSN31542445 1217 COSMIC
COSN24298227 1222 COSMIC
COSN26600840 1257 COSMIC
COSN30177008 1280 COSMIC
COSN31579298 1287 COSMIC
COSN28758452 1350 COSMIC
COSN31577296 1480 COSMIC
COSN31490193 1511 COSMIC
COSN28656567 1536 COSMIC
COSN31547937 1564 COSMIC
COSN29462657 1601 COSMIC
COSN23013822 1607 COSMIC
COSN31514430 1647 COSMIC
COSN30157937 1699 COSMIC
COSN7170467 1752 COSMIC
COSN28974361 1809 COSMIC
COSN26638897 1898 COSMIC
COSN26572969 1936 COSMIC
COSN31518987 1953 COSMIC
COSN31528373 2049 COSMIC
COSN31607808 2244 COSMIC
COSN31592754 2250 COSMIC
COSN20094294 2270 COSMIC
COSN20094296 2270 COSMIC
COSN31552354 2299 COSMIC
rs199867187 1120 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1252241417 6 dbSNP
rs1018548425 8 dbSNP
rs1332920670 9 dbSNP
rs1000105471 13 dbSNP
rs1234161716 16 dbSNP
rs1401804928 21 dbSNP
rs1340986549 24 dbSNP
rs564314813 25 dbSNP
rs1297105338 27 dbSNP
rs1397584136 28 dbSNP
rs1349874476 30 dbSNP
rs1360578106 30 dbSNP
rs530132813 31 dbSNP
rs868604565 31 dbSNP
rs1397208507 38 dbSNP
rs1413501619 38 dbSNP
rs1424941491 40 dbSNP
rs1459723307 42 dbSNP
rs1171114455 44 dbSNP
rs1409056977 47 dbSNP
rs969077491 47 dbSNP
rs1344864000 57 dbSNP
rs1317313926 58 dbSNP
rs1251925591 59 dbSNP
rs1209788242 63 dbSNP
rs1467384738 64 dbSNP
rs1398718423 68 dbSNP
rs1214487091 69 dbSNP
rs1328814311 70 dbSNP
rs552869019 71 dbSNP
rs1241325165 73 dbSNP
rs369023656 86 dbSNP
rs1009862691 89 dbSNP
rs1396322441 92 dbSNP
rs895537151 93 dbSNP
rs1474874580 94 dbSNP
rs1414949419 96 dbSNP
rs1382419462 100 dbSNP
rs1159767063 107 dbSNP
rs1453916121 108 dbSNP
rs1376601543 119 dbSNP
rs1056825818 121 dbSNP
rs1485966509 134 dbSNP
rs1255268157 138 dbSNP
rs908195763 142 dbSNP
rs1194725887 143 dbSNP
rs1001713358 159 dbSNP
rs1213272422 161 dbSNP
rs906016417 163 dbSNP
rs1351444553 164 dbSNP
rs1255496226 165 dbSNP
rs1231920731 166 dbSNP
rs1038307826 167 dbSNP
rs942294050 182 dbSNP
rs559754422 184 dbSNP
rs1213599835 202 dbSNP
rs1319832849 205 dbSNP
rs1382438166 207 dbSNP
rs908127520 212 dbSNP
rs1171263228 214 dbSNP
rs1333344247 221 dbSNP
rs1297766549 240 dbSNP
rs1397472145 241 dbSNP
rs1174629558 244 dbSNP
rs1047724906 245 dbSNP
rs933319700 249 dbSNP
rs923327547 253 dbSNP
rs1361421384 261 dbSNP
rs1256884473 264 dbSNP
rs1349931580 268 dbSNP
rs541044162 268 dbSNP
rs965186202 269 dbSNP
rs1227608423 272 dbSNP
rs1443473830 273 dbSNP
rs1337121857 274 dbSNP
rs1271725584 278 dbSNP
rs1227683945 279 dbSNP
rs911050362 282 dbSNP
rs1310507151 284 dbSNP
rs1416142302 289 dbSNP
rs1326352217 291 dbSNP
rs531090022 301 dbSNP
rs192318338 303 dbSNP
rs968627700 308 dbSNP
rs1348080794 310 dbSNP
rs984285913 311 dbSNP
rs1170067067 318 dbSNP
rs1171838226 319 dbSNP
rs1417467775 326 dbSNP
rs1185875810 327 dbSNP
rs952584424 332 dbSNP
rs1428569275 333 dbSNP
rs1436065552 334 dbSNP
rs573123801 334 dbSNP
rs1274850664 335 dbSNP
rs1214983094 338 dbSNP
rs1184400122 340 dbSNP
rs1455351081 343 dbSNP
rs1025359129 355 dbSNP
rs1234782330 358 dbSNP
rs1355467763 361 dbSNP
rs1287176449 362 dbSNP
rs868471705 364 dbSNP
rs1353339605 365 dbSNP
rs1331259376 367 dbSNP
rs1410931540 368 dbSNP
rs1193438566 370 dbSNP
rs959680328 372 dbSNP
rs1035346258 375 dbSNP
rs1001281982 378 dbSNP
rs993839010 380 dbSNP
rs900880632 381 dbSNP
rs1468533031 382 dbSNP
rs1234591986 383 dbSNP
rs542077214 384 dbSNP
rs1019282941 386 dbSNP
rs1205881537 387 dbSNP
rs1306992319 388 dbSNP
rs1037834931 390 dbSNP
rs1335130799 391 dbSNP
rs1271044782 396 dbSNP
rs575048504 399 dbSNP
rs886660677 400 dbSNP
rs12752101 401 dbSNP
rs540325689 407 dbSNP
rs1324360743 408 dbSNP
rs1303820181 409 dbSNP
rs1463184196 412 dbSNP
rs1395582097 420 dbSNP
rs572915578 424 dbSNP
rs557449944 425 dbSNP
rs1365285272 430 dbSNP
rs1410260262 431 dbSNP
rs1398966770 432 dbSNP
rs1299779508 433 dbSNP
rs1462492300 436 dbSNP
rs893891041 436 dbSNP
rs1353401080 438 dbSNP
rs1453746623 438 dbSNP
rs1250882704 439 dbSNP
rs1166188811 440 dbSNP
rs1468636402 442 dbSNP
rs1436154204 443 dbSNP
rs1052430047 446 dbSNP
rs1192678110 448 dbSNP
rs1213227103 451 dbSNP
rs1318126311 454 dbSNP
rs1452928770 458 dbSNP
rs1253195428 459 dbSNP
rs1241482746 460 dbSNP
rs1347845617 460 dbSNP
rs539747065 462 dbSNP
rs1301702764 463 dbSNP
rs1178269817 466 dbSNP
rs1039479599 467 dbSNP
rs1480602482 471 dbSNP
rs1428926277 473 dbSNP
rs1231183266 474 dbSNP
rs943466283 475 dbSNP
rs1159987161 478 dbSNP
rs1433991237 483 dbSNP
rs1393264101 484 dbSNP
rs1175266198 492 dbSNP
rs1454505392 494 dbSNP
rs1260779480 495 dbSNP
rs1184360635 505 dbSNP
rs779322833 507 dbSNP
rs187800579 513 dbSNP
rs982064518 514 dbSNP
rs1209617295 522 dbSNP
rs978586237 524 dbSNP
rs1278743356 527 dbSNP
rs947222543 533 dbSNP
rs913089602 534 dbSNP
rs1279850651 539 dbSNP
rs1295337677 541 dbSNP
rs1213003813 543 dbSNP
rs948328749 554 dbSNP
rs1298878274 556 dbSNP
rs61776293 557 dbSNP
rs1035313608 559 dbSNP
rs984704845 561 dbSNP
rs183510698 565 dbSNP
rs754383243 566 dbSNP
rs2765546 567 dbSNP
rs1372531280 568 dbSNP
rs1305589517 569 dbSNP
rs1419865301 569 dbSNP
rs972511703 572 dbSNP
rs1186801630 573 dbSNP
rs35742428 573 dbSNP
rs1484367366 575 dbSNP
rs1416067789 583 dbSNP
rs1375565762 588 dbSNP
rs965112307 589 dbSNP
rs969798783 590 dbSNP
rs1251076617 593 dbSNP
rs1019315533 596 dbSNP
rs1202944928 601 dbSNP
rs1006538956 604 dbSNP
rs1464285250 610 dbSNP
rs2765547 611 dbSNP
rs567866272 612 dbSNP
rs1295220890 617 dbSNP
rs1160299769 623 dbSNP
rs886590091 628 dbSNP
rs1026513759 629 dbSNP
rs1418969199 633 dbSNP
rs1410425713 634 dbSNP
rs2624879 636 dbSNP
rs1190755760 644 dbSNP
rs1486020964 645 dbSNP
rs553092606 646 dbSNP
rs1208981162 655 dbSNP
rs534779019 657 dbSNP
rs1188094699 665 dbSNP
rs1424898274 667 dbSNP
rs1175998831 668 dbSNP
rs1250509555 668 dbSNP
rs902136565 670 dbSNP
rs1038998583 671 dbSNP
rs1486980017 672 dbSNP
rs943374905 674 dbSNP
rs1011826535 675 dbSNP
rs1275126079 678 dbSNP
rs1239532661 680 dbSNP
rs903910155 683 dbSNP
rs1335262955 685 dbSNP
rs570852916 689 dbSNP
rs1286349817 691 dbSNP
rs571252771 692 dbSNP
rs1355529818 698 dbSNP
rs1325031751 700 dbSNP
rs988642192 702 dbSNP
rs1052873334 705 dbSNP
rs938560064 708 dbSNP
rs552312055 712 dbSNP
rs928550684 720 dbSNP
rs1239144626 729 dbSNP
rs1193480211 731 dbSNP
rs1467304452 733 dbSNP
rs546365765 740 dbSNP
rs906607056 747 dbSNP
rs564213932 749 dbSNP
rs1311763137 753 dbSNP
rs1210670443 758 dbSNP
rs373225643 760 dbSNP
rs1046397547 764 dbSNP
rs970146044 766 dbSNP
rs1259063583 768 dbSNP
rs1241070900 773 dbSNP
rs1354375567 774 dbSNP
rs148704981 775 dbSNP
rs1372924689 777 dbSNP
rs546022463 777 dbSNP
rs555684 781 dbSNP
rs1323731746 784 dbSNP
rs1381330570 798 dbSNP
rs191369987 799 dbSNP
rs916821540 801 dbSNP
rs1422020403 802 dbSNP
rs187980089 808 dbSNP
rs1173581193 811 dbSNP
rs1410262981 811 dbSNP
rs371126309 811 dbSNP
rs1452893070 815 dbSNP
rs530366392 818 dbSNP
rs1199791295 819 dbSNP
rs777995850 819 dbSNP
rs1446690882 823 dbSNP
rs1048682166 827 dbSNP
rs575046161 831 dbSNP
rs559975152 834 dbSNP
rs1207040355 839 dbSNP
rs1026482453 841 dbSNP
rs1279447301 848 dbSNP
rs1185513323 858 dbSNP
rs1231995030 861 dbSNP
rs540361726 865 dbSNP
rs528149862 867 dbSNP
rs564178454 869 dbSNP
rs1275241543 870 dbSNP
rs1226207066 880 dbSNP
rs997690314 886 dbSNP
rs778773590 887 dbSNP
rs918792343 887 dbSNP
rs1400021717 888 dbSNP
rs972878747 895 dbSNP
rs965144616 904 dbSNP
rs1204817838 908 dbSNP
rs912287875 913 dbSNP
rs1427675281 918 dbSNP
rs1018287920 921 dbSNP
rs1475206323 936 dbSNP
rs1485420379 938 dbSNP
rs1266078903 940 dbSNP
rs1256938179 951 dbSNP
rs1208576661 956 dbSNP
rs1486638504 957 dbSNP
rs1215426550 960 dbSNP
rs985132423 965 dbSNP
rs1337224403 966 dbSNP
rs1335401537 980 dbSNP
rs903837652 984 dbSNP
rs953698338 985 dbSNP
rs1413443352 992 dbSNP
rs1361480220 994 dbSNP
rs1335260493 996 dbSNP
rs1043764918 997 dbSNP
rs1327727341 1002 dbSNP
rs182954626 1003 dbSNP
rs1009602888 1007 dbSNP
rs1381366742 1013 dbSNP
rs867290124 1015 dbSNP
rs1328360737 1017 dbSNP
rs1462361898 1019 dbSNP
rs1185945661 1020 dbSNP
rs1394434909 1022 dbSNP
rs1237930444 1026 dbSNP
rs191609779 1027 dbSNP
rs1435827439 1029 dbSNP
rs956134924 1043 dbSNP
rs1394463463 1046 dbSNP
rs1463563575 1063 dbSNP
rs1373787542 1067 dbSNP
rs1333757191 1068 dbSNP
rs538649088 1074 dbSNP
rs1270724351 1075 dbSNP
rs1002635914 1079 dbSNP
rs906636442 1080 dbSNP
rs541717997 1081 dbSNP
rs567321963 1084 dbSNP
rs1334299347 1086 dbSNP
rs752778925 1091 dbSNP
rs1044685524 1092 dbSNP
rs1447752439 1098 dbSNP
rs1048863291 1099 dbSNP
rs1394102986 1101 dbSNP
rs1289029126 1107 dbSNP
rs1208027148 1108 dbSNP
rs1414667834 1109 dbSNP
rs1157883037 1110 dbSNP
rs1468586429 1110 dbSNP
rs931605209 1113 dbSNP
rs918819567 1114 dbSNP
rs948694056 1119 dbSNP
rs1251441087 1120 dbSNP
rs1223694169 1121 dbSNP
rs1352198729 1121 dbSNP
rs199867187 1121 dbSNP
rs567186092 1121 dbSNP
rs879231006 1121 dbSNP
rs1226165877 1123 dbSNP
rs1311907913 1123 dbSNP
rs1370727298 1124 dbSNP
rs1037216988 1125 dbSNP
rs1324092342 1129 dbSNP
rs908863589 1134 dbSNP
rs144310260 1135 dbSNP
rs1350522903 1140 dbSNP
rs984495331 1146 dbSNP
rs1442127271 1148 dbSNP
rs142845529 1157 dbSNP
rs534482520 1158 dbSNP
rs1393073338 1162 dbSNP
rs985266381 1164 dbSNP
rs750398418 1175 dbSNP
rs1240978622 1180 dbSNP
rs976221757 1182 dbSNP
rs1213112540 1187 dbSNP
rs765052797 1198 dbSNP
rs1487585052 1200 dbSNP
rs1288702590 1202 dbSNP
rs1241548647 1203 dbSNP
rs966630712 1211 dbSNP
rs1299709241 1216 dbSNP
rs1017796996 1217 dbSNP
rs1167415510 1220 dbSNP
rs1368655881 1223 dbSNP
rs1428025284 1223 dbSNP
rs1008216022 1226 dbSNP
rs139937925 1228 dbSNP
rs990201870 1234 dbSNP
rs1298689608 1235 dbSNP
rs1434050790 1237 dbSNP
rs1454522971 1238 dbSNP
rs1373370015 1242 dbSNP
rs558972562 1243 dbSNP
rs1178014356 1252 dbSNP
rs537056136 1258 dbSNP
rs1009529372 1262 dbSNP
rs1478495537 1264 dbSNP
rs1031519674 1265 dbSNP
rs981245715 1266 dbSNP
rs971244707 1269 dbSNP
rs1022748582 1274 dbSNP
rs1203849632 1288 dbSNP
rs1254624734 1290 dbSNP
rs1012364110 1291 dbSNP
rs1281984070 1292 dbSNP
rs761746653 1295 dbSNP
rs563284604 1296 dbSNP
rs1278970923 1304 dbSNP
rs1056491776 1306 dbSNP
rs551436928 1307 dbSNP
rs1027005276 1315 dbSNP
rs995886633 1318 dbSNP
rs188185377 1320 dbSNP
rs1328214434 1321 dbSNP
rs763866012 1322 dbSNP
rs1186689364 1324 dbSNP
rs1377390004 1332 dbSNP
rs878987907 1335 dbSNP
rs1313706867 1336 dbSNP
rs1483761289 1337 dbSNP
rs1251127231 1343 dbSNP
rs1196957758 1348 dbSNP
rs530400127 1350 dbSNP
rs1424132983 1361 dbSNP
rs1170597923 1364 dbSNP
rs566301546 1367 dbSNP
rs891333834 1368 dbSNP
rs1364333553 1376 dbSNP
rs12404480 1380 dbSNP
rs1050333922 1382 dbSNP
rs533664463 1383 dbSNP
rs1481784323 1385 dbSNP
rs1259076558 1386 dbSNP
rs1211088468 1390 dbSNP
rs1400652594 1397 dbSNP
rs1441492554 1403 dbSNP
rs1276901461 1406 dbSNP
rs760192800 1410 dbSNP
rs1455876451 1413 dbSNP
rs914281172 1419 dbSNP
rs1351916498 1420 dbSNP
rs1288240982 1421 dbSNP
rs1424947023 1423 dbSNP
rs1250219424 1425 dbSNP
rs775079096 1431 dbSNP
rs183063689 1439 dbSNP
rs965854695 1442 dbSNP
rs1293995178 1444 dbSNP
rs924279093 1446 dbSNP
rs746379625 1447 dbSNP
rs1354286538 1448 dbSNP
rs910707559 1454 dbSNP
rs986316012 1458 dbSNP
rs981360723 1469 dbSNP
rs1357674425 1473 dbSNP
rs968669391 1483 dbSNP
rs1402210497 1484 dbSNP
rs1022515375 1485 dbSNP
rs971277220 1486 dbSNP
rs1384740926 1489 dbSNP
rs1009500035 1492 dbSNP
rs1022821820 1497 dbSNP
rs1293646900 1502 dbSNP
rs1471577724 1508 dbSNP
rs991707773 1510 dbSNP
rs564036013 1511 dbSNP
rs1188086777 1514 dbSNP
rs1441854055 1514 dbSNP
rs1472234084 1515 dbSNP
rs1235365343 1519 dbSNP
rs1193185482 1529 dbSNP
rs1381348298 1529 dbSNP
rs4845938 1536 dbSNP
rs995521924 1550 dbSNP
rs1269557694 1559 dbSNP
rs771238376 1561 dbSNP
rs749543213 1563 dbSNP
rs1354092480 1564 dbSNP
rs1267954076 1566 dbSNP
rs530469150 1572 dbSNP
rs1230572273 1574 dbSNP
rs1332528584 1583 dbSNP
rs1003577065 1585 dbSNP
rs905316923 1590 dbSNP
rs1358075467 1591 dbSNP
rs1296841263 1593 dbSNP
rs1422082643 1593 dbSNP
rs1361540007 1594 dbSNP
rs562929488 1597 dbSNP
rs1008513075 1598 dbSNP
rs1477156883 1599 dbSNP
rs541751050 1601 dbSNP
rs1049940865 1602 dbSNP
rs932782187 1603 dbSNP
rs201799681 1606 dbSNP
rs72641442 1607 dbSNP
rs1279334877 1611 dbSNP
rs929233556 1611 dbSNP
rs1272113171 1612 dbSNP
rs1431825488 1617 dbSNP
rs1198576258 1620 dbSNP
rs1346877357 1621 dbSNP
rs1365588631 1626 dbSNP
rs934405753 1629 dbSNP
rs1226273525 1631 dbSNP
rs566314739 1646 dbSNP
rs897484589 1650 dbSNP
rs1279593582 1652 dbSNP
rs1402395877 1667 dbSNP
rs765073839 1674 dbSNP
rs1334105592 1675 dbSNP
rs1396629111 1677 dbSNP
rs146005610 1683 dbSNP
rs1404214339 1684 dbSNP
rs1417781001 1686 dbSNP
rs949989638 1688 dbSNP
rs910307939 1698 dbSNP
rs986673340 1706 dbSNP
rs1465348178 1709 dbSNP
rs1475543315 1711 dbSNP
rs1011398211 1713 dbSNP
rs755939640 1716 dbSNP
rs576925129 1717 dbSNP
rs1236770678 1721 dbSNP
rs1185329925 1726 dbSNP
rs369702021 1728 dbSNP
rs951932910 1729 dbSNP
rs1274329141 1732 dbSNP
rs1034982058 1733 dbSNP
rs920436865 1736 dbSNP
rs974187452 1737 dbSNP
rs1259415311 1746 dbSNP
rs961440113 1749 dbSNP
rs1341762309 1751 dbSNP
rs1296538899 1752 dbSNP
rs1432612264 1756 dbSNP
rs1372969092 1757 dbSNP
rs1284083554 1758 dbSNP
rs537545466 1760 dbSNP
rs1342614276 1762 dbSNP
rs377187327 1765 dbSNP
rs199954187 1766 dbSNP
rs1398448197 1767 dbSNP
rs1173110692 1772 dbSNP
rs1466146613 1778 dbSNP
rs1023736282 1779 dbSNP
rs1161339770 1788 dbSNP
rs1473763222 1789 dbSNP
rs190890391 1791 dbSNP
rs1429945390 1808 dbSNP
rs1456290411 1808 dbSNP
rs1013143015 1810 dbSNP
rs1450489411 1810 dbSNP
rs372373282 1819 dbSNP
rs1455831351 1820 dbSNP
rs1285139368 1822 dbSNP
rs1359153964 1822 dbSNP
rs543561768 1822 dbSNP
rs1027519439 1823 dbSNP
rs1447822726 1825 dbSNP
rs955619336 1826 dbSNP
rs1407004874 1827 dbSNP
rs776056531 1828 dbSNP
rs1468537856 1833 dbSNP
rs1157979294 1835 dbSNP
rs897746241 1838 dbSNP
rs757231361 1839 dbSNP
rs1178845028 1840 dbSNP
rs536617450 1842 dbSNP
rs1234630300 1849 dbSNP
rs1205335809 1850 dbSNP
rs1341603060 1851 dbSNP
rs1451686130 1852 dbSNP
rs1293050537 1874 dbSNP
rs893330154 1883 dbSNP
rs1351901239 1888 dbSNP
rs566389318 1892 dbSNP
rs1236848190 1900 dbSNP
rs1224509659 1909 dbSNP
rs1349761377 1915 dbSNP
rs1301740185 1919 dbSNP
rs1054619135 1924 dbSNP
rs1274705964 1925 dbSNP
rs186499528 1925 dbSNP
rs1350572031 1936 dbSNP
rs1297456258 1941 dbSNP
rs367556741 1941 dbSNP
rs538862111 1950 dbSNP
rs142525076 1952 dbSNP
rs1422546308 1953 dbSNP
rs1192571390 1956 dbSNP
rs1409880245 1958 dbSNP
rs1045386523 1978 dbSNP
rs946486203 1981 dbSNP
rs949689315 1988 dbSNP
rs1487616809 1990 dbSNP
rs181999733 1991 dbSNP
rs988309174 1992 dbSNP
rs1311979986 2003 dbSNP
rs1276720288 2007 dbSNP
rs1346210631 2011 dbSNP
rs1436264691 2011 dbSNP
rs1211417362 2014 dbSNP
rs1056155361 2015 dbSNP
rs1398067549 2016 dbSNP
rs930568648 2019 dbSNP
rs935547682 2022 dbSNP
rs1378504393 2026 dbSNP
rs1465298506 2034 dbSNP
rs1357240823 2036 dbSNP
rs753650111 2037 dbSNP
rs1414731688 2039 dbSNP
rs530608326 2041 dbSNP
rs982492959 2047 dbSNP
rs1167997785 2049 dbSNP
rs1477119600 2049 dbSNP
rs969436337 2049 dbSNP
rs1187649290 2051 dbSNP
rs1265895474 2051 dbSNP
rs920452106 2054 dbSNP
rs1483101507 2055 dbSNP
rs1024082502 2057 dbSNP
rs190708048 2057 dbSNP
rs952808880 2059 dbSNP
rs1257493370 2060 dbSNP
rs1216810428 2062 dbSNP
rs1178322390 2065 dbSNP
rs1482765612 2067 dbSNP
rs1296152781 2069 dbSNP
rs961469587 2071 dbSNP
rs1249781632 2077 dbSNP
rs993337355 2080 dbSNP
rs547798657 2082 dbSNP
rs1399164839 2084 dbSNP
rs1018879667 2089 dbSNP
rs1328880787 2090 dbSNP
rs1466697127 2092 dbSNP
rs908596579 2092 dbSNP
rs1171707587 2094 dbSNP
rs1423790155 2097 dbSNP
rs1412076668 2098 dbSNP
rs1009252275 2100 dbSNP
rs1462057887 2102 dbSNP
rs1197016825 2106 dbSNP
rs764301559 2106 dbSNP
rs748430278 2108 dbSNP
rs1252011981 2112 dbSNP
rs1243937039 2117 dbSNP
rs1256332349 2124 dbSNP
rs574118680 2125 dbSNP
rs1209193694 2132 dbSNP
rs1010652155 2133 dbSNP
rs1375920911 2139 dbSNP
rs529605282 2142 dbSNP
rs1028318737 2153 dbSNP
rs935515188 2154 dbSNP
rs1229001240 2156 dbSNP
rs997537899 2157 dbSNP
rs1457834691 2163 dbSNP
rs928198768 2175 dbSNP
rs559228612 2183 dbSNP
rs1046628011 2186 dbSNP
rs948334581 2186 dbSNP
rs1285915954 2191 dbSNP
rs916579902 2205 dbSNP
rs781332272 2209 dbSNP
rs1209376312 2232 dbSNP
rs1402497185 2234 dbSNP
rs1033161770 2249 dbSNP
rs1487553529 2251 dbSNP
rs1301944606 2255 dbSNP
rs1267102533 2257 dbSNP
rs1464828312 2260 dbSNP
rs1347380866 2264 dbSNP
rs1160530820 2268 dbSNP
rs952737073 2268 dbSNP
rs1159689359 2269 dbSNP
rs1352686814 2270 dbSNP
rs367738378 2270 dbSNP
rs1241870145 2272 dbSNP
rs1306860738 2272 dbSNP
rs918685289 2273 dbSNP
rs998949976 2274 dbSNP
rs1384502817 2275 dbSNP
rs1369139280 2277 dbSNP
rs1409769580 2285 dbSNP
rs1190195133 2286 dbSNP
rs1009123970 2287 dbSNP
rs1157299590 2287 dbSNP
rs1305436863 2287 dbSNP
rs1333964463 2287 dbSNP
rs1491537533 2287 dbSNP
rs1491568569 2287 dbSNP
rs397959042 2287 dbSNP
rs548562440 2287 dbSNP
rs59054467 2287 dbSNP
rs1487960845 2288 dbSNP
rs1491097033 2288 dbSNP
rs754937721 2288 dbSNP
rs1424568175 2292 dbSNP
rs541316668 2293 dbSNP
rs1198989625 2295 dbSNP
rs1482151726 2296 dbSNP
rs1255008954 2315 dbSNP
rs1230633918 2332 dbSNP
rs1262329899 2339 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 54897.0
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 GSM714645. RNA binding protein: AGO2. Condition:completeT1 ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' auuuggauguccguccUGAUu 5'
                          |||| 
Target 5' aaacuucauauugcacACUAg 3'
 		2 - 22
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 GSM714645
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repB
Location of target site ENST00000377022.3 | 3UTR | UAAACUUCAUAUUGCACACUAG
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
29 hsa-miR-4540 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT154897 GNAS GNAS complex locus 2 2
MIRT444915 PSG11 pregnancy specific beta-1-glycoprotein 11 2 2
MIRT446718 PSG3 pregnancy specific beta-1-glycoprotein 3 2 2
MIRT464587 UBN2 ubinuclein 2 2 2
MIRT468816 RSRC2 arginine and serine rich coiled-coil 2 2 6
MIRT469397 REL REL proto-oncogene, NF-kB subunit 2 6
MIRT491901 YWHAE tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon 2 2
MIRT498959 ORC4 origin recognition complex subunit 4 2 8
MIRT499438 ODF2L outer dense fiber of sperm tails 2 like 2 8
MIRT506234 PEX13 peroxisomal biogenesis factor 13 2 4
MIRT527911 B3GALT5 beta-1,3-galactosyltransferase 5 2 2
MIRT532624 PHF5A PHD finger protein 5A 2 2
MIRT538103 DDX6 DEAD-box helicase 6 2 2
MIRT549032 CASZ1 castor zinc finger 1 2 2
MIRT559870 ATXN3 ataxin 3 2 2
MIRT575888 Ablim1 actin-binding LIM protein 1 2 4
MIRT608663 ABLIM1 actin binding LIM protein 1 2 5
MIRT616515 C9orf170 chromosome 9 open reading frame 170 2 2
MIRT624063 EID1 EP300 interacting inhibitor of differentiation 1 2 2
MIRT625533 RALGAPB Ral GTPase activating protein non-catalytic beta subunit 2 2
MIRT637169 TMEM50A transmembrane protein 50A 2 2
MIRT639274 KLHL23 kelch like family member 23 2 2
MIRT642924 CCDC90B coiled-coil domain containing 90B 2 2
MIRT649085 FBXO25 F-box protein 25 2 2
MIRT655089 PI4K2A phosphatidylinositol 4-kinase type 2 alpha 2 2
MIRT700888 PER2 period circadian clock 2 2 2
MIRT705966 ACBD5 acyl-CoA binding domain containing 5 2 2
MIRT709418 FBXL20 F-box and leucine rich repeat protein 20 2 2
MIRT723921 ADAMTS15 ADAM metallopeptidase with thrombospondin type 1 motif 15 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-4540 Topotecan 60699 NSC609699 approved resistant cell line (W1)
hsa-miR-4540 Tamoxifen 2733525 NSC180973 approved resistant cell line (LCC2)
hsa-miR-4540 Platinum 23939 resistant tissue (non-small cell lung cancer)

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