miRTarBase - #MIRT513256


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pre-miRNA Information
pre-miRNA hsa-mir-4260   
Genomic Coordinates chr1: 209623444 - 209623510
Description Homo sapiens miR-4260 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4260
Sequence 11| CUUGGGGCAUGGAGUCCCA |29
Evidence Experimental
Experiments SOLiD
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSM7908770 6 COSMIC
COSN30117883 7 COSMIC
COSN26730871 12 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs372999583 2 dbSNP
rs1367351910 8 dbSNP
rs1266505194 15 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol CALM3   
Synonyms CaM, CaMIII, HEL-S-72, PHKD, PHKD3
Description calmodulin 3
Transcript NM_005184   
Expression
Putative miRNA Targets on CALM3
3'UTR of CALM3
(miRNA target sites are highlighted)		 
>CALM3|NM_005184|3'UTR
   1 AGGCCCCCCGGGCAGCTGGCGATGCCCGTTCTCTTGATCTCTCTCTTCTCGCGCGCGCACTCTCTCTTCAACACTCCCCT
  81 GCGTACCCCGGTTCTAGCAAACACCAATTGATTGACTGAGAATCTGATAAAGCAACAAAAGATTTGTCCCAAGCTGCATG
 161 ATTGCTCTTTCTCCTTCTTCCCTGAGTCTCTCTCCATGCCCCTCATCTCTTCCTTTTGCCCTCGCCTCTTCCATCCATGT
 241 CTTCCAAGGCCTGATGCATTCATAAGTTGAAGCCCTCCCCAGATCCCCTTGGGGAGCCTCTGCCCTCCTCCAGCCCGGAT
 321 GGCTCTCCTCCATTTTGGTTTGTTTCCTCTTGTTTGTCATCTTATTTTGGGTGCTGGGGTGGCTGCCAGCCCTGTCCCGG
 401 GACCTGCTGGGAGGGACAAGAGGCCCTCCCCCAGGCAGAAGAGCATGCCCTTTGCCGTTGCATGCAACCAGCCCTGTGAT
 481 TCCACGTGCAGATCCCAGCAGCCTGTTGGGGCAGGGGTGCCAAGAGAGGCATTCCAGAAGGACTGAGGGGGCGTTGAGGA
 561 ATTGTGGCGTTGACTGGATGTGGCCCAGGAGGGGGTCGAGGGGGCCAACTCACAGAAGGGGACTGACAGTGGGCAACACT
 641 CACATCCCACTGGCTGCTGTTCTGAAACCATCTGATTGGCTTTCTGAGGTTTGGCTGGGTGGGGACTGCTCATTTGGCCA
 721 CTCTGCAAATTGGACTTGCCCGCGTTCCTGAAGCGCTCTCGAGCTGTTCTGTAAATACCTGGTGCTAACATCCCATGCCG
 801 CTCCCTCCTCACGATGCACCCACCGCCCTGAGGGCCCGTCCTAGGAATGGATGTGGGGATGGTCGCTTTGTAATGTGCTG
 881 GTTCTCTTTTTTTTTCTTTCCCCTCTATGGCCCTTAAGACTTTCATTTTGTTCAGAACCATGCTGGGCTAGCTAAAGGGT
 961 GGGGAGAGGGAAGATGGGCCCCACCACGCTCTCAAGAGAACGCACCTGCAATAAAACAGTCTTGTCGGCCAGCTGCCCAG
1041 GGGACGGCAGCTACAGCAGCCTCTGCGTCCTGGTCCGCCAGCACCTCCCGCTTCTCCGTGGTGACTTGGCGCCGCTTCCT
1121 CACATCTGTGCTCCGTGCCCTCTTCCCTGCCTCTTCCCTCGCCCACCTGCCTGCCCCCATACTCCCCCAGCGGAGAGCAT
1201 GATCCGTGCCCTTGCTTCTGACTTTCGCCTCTGGGACAAGTAAGTCAATGTGGGCAGTTCAGTCGTCTGGGTTTTTTCCC
1281 CTTTTCTGTTCATTTCATCTGGCTCCCCCCACCACCTCCCCACCCCACCCCCCACCCCCTGCTTCCCCTCACTGCCCAGG
1361 TCGATCAAGTGGCTTTTCCTGGGACCTGCCCAGCTTTGAGAATCTCTTCTCATCCACCCTCTGGCACCCAGCCTCTGAGG
1441 GAAGGAGGGATGGGGCATAGTGGGAGACCCAGCCAAGAGCTGAGGGTAAGGGCAGGTAGGCGTGAGGCTGTGGACATTTT
1521 CGGAATGTTTTGGTTTTGTTTTTTTTAAACCGGGCAATATTGTGTTCAGTTCAAGCTGTGAAGAAAAATATATATCAATG
1601 TTTTCCAATAAAATACAGTGACTACCTGAAAAAAAAAAAAAAAAAAA
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' accCUGAGGUACGGGGUUc 5'
             ||:|   ||:||||| 
Target 5' aaaGATT---TGTCCCAAg 3'
 138 - 153 133.00 -15.10
2 
miRNA  3' acccuGAGGUACGGGGuuc 5'
               |||||||||||   
Target 5' tctctCTCCATGCCCCtca 3'
 187 - 205 130.00 -21.72
3 
miRNA  3' acCCUGAGGUACGGGGUuc 5'
            |||   :: ||||||  
Target 5' agGGAAGATGGGCCCCAcc 3'
 967 - 985 125.00 -17.60
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
1186207 4 ClinVar
392931 20 ClinVar
1175610 239 ClinVar
COSN30139644 9 COSMIC
COSN22896901 10 COSMIC
COSN26969046 10 COSMIC
COSN30473252 11 COSMIC
COSN13815729 22 COSMIC
COSN28825058 22 COSMIC
COSN30110163 24 COSMIC
COSN30171460 27 COSMIC
COSN30508306 47 COSMIC
COSN30138341 53 COSMIC
COSN30752169 54 COSMIC
COSN30505767 56 COSMIC
COSN19771661 83 COSMIC
COSN19730792 84 COSMIC
COSN24306932 88 COSMIC
COSN30714324 105 COSMIC
COSN25139404 255 COSMIC
COSN5761206 263 COSMIC
COSN31513585 658 COSMIC
COSN16724744 696 COSMIC
COSN26549075 729 COSMIC
COSN23779637 739 COSMIC
COSN16653089 761 COSMIC
COSN26568337 762 COSMIC
COSN30165527 831 COSMIC
COSN24545389 859 COSMIC
COSN27465841 896 COSMIC
COSN16477878 911 COSMIC
COSN29715246 1039 COSMIC
COSN26637244 1073 COSMIC
COSN31571928 1106 COSMIC
COSN15095270 1245 COSMIC
COSN7446986 1315 COSMIC
COSN8973942 1328 COSMIC
COSN31661331 1467 COSMIC
COSN31594588 1547 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1357366971 2 dbSNP
rs758159285 4 dbSNP
rs772262461 4 dbSNP
rs1021871838 5 dbSNP
rs373639939 6 dbSNP
rs776273060 7 dbSNP
rs1185923613 8 dbSNP
rs1330512261 9 dbSNP
rs762466010 10 dbSNP
rs773792527 11 dbSNP
rs1186310161 12 dbSNP
rs763262846 18 dbSNP
rs766718548 19 dbSNP
rs368104478 20 dbSNP
rs767653657 21 dbSNP
rs2229577 22 dbSNP
rs750311120 28 dbSNP
rs760289559 29 dbSNP
rs746703455 31 dbSNP
rs1357645531 36 dbSNP
rs1310738179 38 dbSNP
rs763914591 42 dbSNP
rs754643698 44 dbSNP
rs1402292147 45 dbSNP
rs780937181 48 dbSNP
rs747668761 49 dbSNP
rs371492420 51 dbSNP
rs533341328 52 dbSNP
rs370437245 53 dbSNP
rs373845333 54 dbSNP
rs143416579 55 dbSNP
rs1280834750 56 dbSNP
rs566425717 57 dbSNP
rs528957115 58 dbSNP
rs1007562909 60 dbSNP
rs758987936 60 dbSNP
rs1039326977 62 dbSNP
rs1460217874 63 dbSNP
rs1397050924 64 dbSNP
rs186233475 65 dbSNP
rs902082630 67 dbSNP
rs1334658746 69 dbSNP
rs1457128739 72 dbSNP
rs1406392233 82 dbSNP
rs370746699 83 dbSNP
rs1026461427 84 dbSNP
rs538139194 90 dbSNP
rs1245727896 91 dbSNP
rs1005936586 95 dbSNP
rs1273528784 96 dbSNP
rs1342089474 107 dbSNP
rs375150686 108 dbSNP
rs969737189 109 dbSNP
rs1223909182 113 dbSNP
rs1366217586 120 dbSNP
rs1300810178 136 dbSNP
rs1043729277 149 dbSNP
rs750435544 153 dbSNP
rs1373671590 157 dbSNP
rs979722071 161 dbSNP
rs1327047958 164 dbSNP
rs1457014166 165 dbSNP
rs1344010304 166 dbSNP
rs1249974976 170 dbSNP
rs1401365939 174 dbSNP
rs1443047606 174 dbSNP
rs1185706625 175 dbSNP
rs1172032568 178 dbSNP
rs1455785719 181 dbSNP
rs928586014 188 dbSNP
rs1484762215 191 dbSNP
rs1243790024 193 dbSNP
rs959956569 201 dbSNP
rs879785123 203 dbSNP
rs1002168064 205 dbSNP
rs1444187260 206 dbSNP
rs1277504108 209 dbSNP
rs1235818765 210 dbSNP
rs1348199989 220 dbSNP
rs1056801056 221 dbSNP
rs375625847 224 dbSNP
rs1463523159 225 dbSNP
rs10113 239 dbSNP
rs1432048286 240 dbSNP
rs1359074892 246 dbSNP
rs1311184804 247 dbSNP
rs1436657789 249 dbSNP
rs112654432 252 dbSNP
rs1469896995 255 dbSNP
rs979548998 258 dbSNP
rs1426523008 259 dbSNP
rs1005372074 263 dbSNP
rs533960079 276 dbSNP
rs1018497390 286 dbSNP
rs925340309 288 dbSNP
rs1212480767 289 dbSNP
rs56161516 289 dbSNP
rs766421117 293 dbSNP
rs1273476895 304 dbSNP
rs553459886 311 dbSNP
rs372613705 312 dbSNP
rs902109850 317 dbSNP
rs190593283 318 dbSNP
rs1328547525 321 dbSNP
rs923285138 322 dbSNP
rs148364198 325 dbSNP
rs886643938 329 dbSNP
rs710889 331 dbSNP
rs1311581440 336 dbSNP
rs58879748 337 dbSNP
rs1416714005 353 dbSNP
rs1376075615 358 dbSNP
rs988897302 359 dbSNP
rs183554340 361 dbSNP
rs187698430 362 dbSNP
rs1356470051 364 dbSNP
rs1261276595 371 dbSNP
rs1170929939 372 dbSNP
rs1001171777 377 dbSNP
rs564423714 379 dbSNP
rs1189452448 380 dbSNP
rs1223580269 392 dbSNP
rs1193548305 395 dbSNP
rs1481434470 396 dbSNP
rs1262239543 397 dbSNP
rs753130601 398 dbSNP
rs1189052583 399 dbSNP
rs1334544120 400 dbSNP
rs937614110 401 dbSNP
rs1235636091 402 dbSNP
rs960235453 415 dbSNP
rs1057386435 418 dbSNP
rs1356199812 418 dbSNP
rs988776093 419 dbSNP
rs1389711187 420 dbSNP
rs895523050 423 dbSNP
rs1298944647 427 dbSNP
rs929608846 427 dbSNP
rs1391966989 428 dbSNP
rs3729764 429 dbSNP
rs1177972061 431 dbSNP
rs1363132064 436 dbSNP
rs1403259119 442 dbSNP
rs968604781 443 dbSNP
rs1289061356 445 dbSNP
rs1250817016 446 dbSNP
rs540494480 448 dbSNP
rs1380921232 457 dbSNP
rs749865929 458 dbSNP
rs1215916517 466 dbSNP
rs1005691690 468 dbSNP
rs1018109502 470 dbSNP
rs771584904 472 dbSNP
rs560704391 475 dbSNP
rs1337546556 483 dbSNP
rs753854456 486 dbSNP
rs549014226 487 dbSNP
rs1281531374 490 dbSNP
rs1322902354 524 dbSNP
rs1327722167 529 dbSNP
rs1441367274 535 dbSNP
rs1384241547 536 dbSNP
rs1156686339 539 dbSNP
rs370887036 544 dbSNP
rs563558784 548 dbSNP
rs768215757 552 dbSNP
rs1172647707 554 dbSNP
rs562390054 555 dbSNP
rs1484987956 556 dbSNP
rs1203176356 569 dbSNP
rs531320877 570 dbSNP
rs1195966194 572 dbSNP
rs1469176880 581 dbSNP
rs988784347 585 dbSNP
rs1020217643 587 dbSNP
rs776350182 588 dbSNP
rs1261438052 591 dbSNP
rs1233618522 592 dbSNP
rs1346078883 593 dbSNP
rs191463363 595 dbSNP
rs1305886844 596 dbSNP
rs886674130 598 dbSNP
rs761599896 599 dbSNP
rs1316168339 605 dbSNP
rs1334803955 609 dbSNP
rs979218740 610 dbSNP
rs1201482067 613 dbSNP
rs113733185 614 dbSNP
rs905641203 615 dbSNP
rs1001204545 619 dbSNP
rs534051400 623 dbSNP
rs769636506 626 dbSNP
rs1372818655 628 dbSNP
rs532047125 629 dbSNP
rs1264530516 634 dbSNP
rs993102321 634 dbSNP
rs567413636 635 dbSNP
rs1010296772 636 dbSNP
rs1211813954 637 dbSNP
rs1338527778 640 dbSNP
rs1451107714 643 dbSNP
rs188057901 644 dbSNP
rs1288663976 661 dbSNP
rs1327021892 663 dbSNP
rs1292583114 672 dbSNP
rs1366581267 678 dbSNP
rs1407362526 681 dbSNP
rs969010758 687 dbSNP
rs1046783177 692 dbSNP
rs531766111 694 dbSNP
rs575269566 697 dbSNP
rs1166586829 703 dbSNP
rs1476588932 708 dbSNP
rs964799164 709 dbSNP
rs1424992412 714 dbSNP
rs974859633 725 dbSNP
rs10405893 729 dbSNP
rs1238594861 739 dbSNP
rs377339619 742 dbSNP
rs997957676 743 dbSNP
rs1029564470 744 dbSNP
rs983847090 746 dbSNP
rs892400246 747 dbSNP
rs112684696 751 dbSNP
rs141632852 756 dbSNP
rs540882337 758 dbSNP
rs1231331481 759 dbSNP
rs1357266154 762 dbSNP
rs978908303 764 dbSNP
rs1333685607 767 dbSNP
rs560525172 770 dbSNP
rs933909157 778 dbSNP
rs1401434607 783 dbSNP
rs1164857968 790 dbSNP
rs937505463 792 dbSNP
rs1056904952 793 dbSNP
rs993008989 794 dbSNP
rs574171902 800 dbSNP
rs542396792 801 dbSNP
rs766442907 802 dbSNP
rs1162014896 806 dbSNP
rs1365523111 813 dbSNP
rs757560245 814 dbSNP
rs562552565 815 dbSNP
rs982998463 816 dbSNP
rs1443478210 819 dbSNP
rs746172119 825 dbSNP
rs562175328 826 dbSNP
rs909583932 830 dbSNP
rs534038664 831 dbSNP
rs941023872 832 dbSNP
rs1000080684 835 dbSNP
rs921001147 838 dbSNP
rs751616368 839 dbSNP
rs1439147375 841 dbSNP
rs1361803611 843 dbSNP
rs1397390394 851 dbSNP
rs1166033209 856 dbSNP
rs201258056 865 dbSNP
rs531360926 866 dbSNP
rs1803240 868 dbSNP
rs1440595459 872 dbSNP
rs1252608854 876 dbSNP
rs892263451 881 dbSNP
rs1009470690 883 dbSNP
rs1321057969 886 dbSNP
rs1044032897 887 dbSNP
rs1444805923 887 dbSNP
rs1234174825 892 dbSNP
rs1030446665 893 dbSNP
rs954932003 896 dbSNP
rs1243411790 897 dbSNP
rs1000590419 903 dbSNP
rs551418446 908 dbSNP
rs959062424 914 dbSNP
rs1014309860 925 dbSNP
rs1370100220 928 dbSNP
rs1430579650 933 dbSNP
rs564833355 933 dbSNP
rs1343917853 936 dbSNP
rs907830285 942 dbSNP
rs1320449740 947 dbSNP
rs781278068 952 dbSNP
rs1420369423 960 dbSNP
rs951518791 963 dbSNP
rs759750636 978 dbSNP
rs983073556 985 dbSNP
rs963338251 986 dbSNP
rs767640929 988 dbSNP
rs753038671 989 dbSNP
rs1474407049 994 dbSNP
rs527600068 1001 dbSNP
rs927528403 1002 dbSNP
rs756530520 1003 dbSNP
rs962435977 1005 dbSNP
rs1057476347 1006 dbSNP
rs917023861 1012 dbSNP
rs1485023609 1017 dbSNP
rs1277754091 1019 dbSNP
rs1212526742 1026 dbSNP
rs945746023 1027 dbSNP
rs1214347571 1028 dbSNP
rs547668241 1028 dbSNP
rs547674606 1033 dbSNP
rs920898320 1034 dbSNP
rs1280586122 1035 dbSNP
rs192964295 1037 dbSNP
rs1311318515 1040 dbSNP
rs1374889508 1040 dbSNP
rs1436873521 1042 dbSNP
rs904224496 1046 dbSNP
rs776131232 1047 dbSNP
rs1274993401 1054 dbSNP
rs1039666487 1056 dbSNP
rs945192894 1058 dbSNP
rs899738926 1059 dbSNP
rs1043676074 1068 dbSNP
rs1254708219 1074 dbSNP
rs1189418619 1075 dbSNP
rs998044031 1077 dbSNP
rs1029889385 1086 dbSNP
rs954821813 1089 dbSNP
rs536431447 1090 dbSNP
rs1005344789 1091 dbSNP
rs1263144298 1098 dbSNP
rs1002103511 1099 dbSNP
rs1219737926 1102 dbSNP
rs1056202235 1107 dbSNP
rs549239108 1111 dbSNP
rs569035039 1112 dbSNP
rs973361122 1113 dbSNP
rs1188610208 1114 dbSNP
rs537917821 1115 dbSNP
rs557741221 1117 dbSNP
rs1004777961 1123 dbSNP
rs959188896 1125 dbSNP
rs1017076590 1127 dbSNP
rs993013464 1130 dbSNP
rs1460899581 1134 dbSNP
rs1415540923 1135 dbSNP
rs917370352 1136 dbSNP
rs1408388877 1138 dbSNP
rs963310110 1139 dbSNP
rs1336299123 1141 dbSNP
rs975654944 1144 dbSNP
rs1240471262 1151 dbSNP
rs1358405369 1153 dbSNP
rs1334834564 1154 dbSNP
rs920961769 1161 dbSNP
rs577571062 1162 dbSNP
rs977614767 1165 dbSNP
rs1322331351 1167 dbSNP
rs1306598487 1168 dbSNP
rs925674214 1175 dbSNP
rs1389840622 1176 dbSNP
rs1379369884 1179 dbSNP
rs1271667059 1180 dbSNP
rs757732447 1192 dbSNP
rs1390805819 1193 dbSNP
rs1217930678 1205 dbSNP
rs935682696 1206 dbSNP
rs986536235 1207 dbSNP
rs1325041829 1215 dbSNP
rs1201427233 1220 dbSNP
rs534269672 1225 dbSNP
rs1156290259 1227 dbSNP
rs1277510931 1228 dbSNP
rs1441211780 1247 dbSNP
rs1380527893 1249 dbSNP
rs867386761 1250 dbSNP
rs1468269875 1252 dbSNP
rs945099633 1257 dbSNP
rs1039359957 1259 dbSNP
rs779565546 1261 dbSNP
rs933864400 1265 dbSNP
rs554435949 1266 dbSNP
rs1488290657 1277 dbSNP
rs1200768192 1278 dbSNP
rs28678916 1279 dbSNP
rs371134338 1289 dbSNP
rs1175754029 1305 dbSNP
rs1368468341 1305 dbSNP
rs1325474478 1306 dbSNP
rs1409015616 1310 dbSNP
rs1055044328 1311 dbSNP
rs1191840557 1311 dbSNP
rs911022883 1312 dbSNP
rs1360777306 1314 dbSNP
rs1402609361 1314 dbSNP
rs942551075 1315 dbSNP
rs563042406 1316 dbSNP
rs1343202359 1317 dbSNP
rs1201430756 1318 dbSNP
rs1376232582 1318 dbSNP
rs1434292775 1318 dbSNP
rs1261635448 1320 dbSNP
rs1399379531 1322 dbSNP
rs1038506637 1323 dbSNP
rs1287050999 1323 dbSNP
rs898225911 1328 dbSNP
rs887205902 1330 dbSNP
rs1004278784 1334 dbSNP
rs994352552 1335 dbSNP
rs3209098 1336 dbSNP
rs1325847501 1339 dbSNP
rs1381235574 1340 dbSNP
rs1017525532 1341 dbSNP
rs1350944660 1342 dbSNP
rs1225112822 1343 dbSNP
rs12978611 1343 dbSNP
rs1340551379 1349 dbSNP
rs1282672315 1350 dbSNP
rs576220714 1354 dbSNP
rs886978440 1355 dbSNP
rs1403862515 1358 dbSNP
rs1174748528 1363 dbSNP
rs1466861146 1364 dbSNP
rs1056342 1381 dbSNP
rs1192080106 1384 dbSNP
rs898653996 1389 dbSNP
rs1271722658 1395 dbSNP
rs545083458 1398 dbSNP
rs1489989429 1402 dbSNP
rs997544640 1404 dbSNP
rs1198268582 1405 dbSNP
rs1004029999 1412 dbSNP
rs1338427876 1417 dbSNP
rs1014989405 1418 dbSNP
rs1028511570 1431 dbSNP
rs1341026625 1454 dbSNP
rs1292175407 1458 dbSNP
rs376180231 1463 dbSNP
rs1412380609 1468 dbSNP
rs1341953441 1481 dbSNP
rs899224750 1485 dbSNP
rs955068795 1486 dbSNP
rs1168956582 1502 dbSNP
rs1020553332 1503 dbSNP
rs994816403 1514 dbSNP
rs564875414 1522 dbSNP
rs958993694 1523 dbSNP
rs746513170 1528 dbSNP
rs1437037992 1531 dbSNP
rs527269928 1533 dbSNP
rs1236183829 1534 dbSNP
rs1157021985 1536 dbSNP
rs1378294772 1538 dbSNP
rs937857879 1539 dbSNP
rs993520003 1541 dbSNP
rs1418895681 1542 dbSNP
rs1163926097 1543 dbSNP
rs1024558278 1546 dbSNP
rs1237944333 1553 dbSNP
rs967975089 1559 dbSNP
rs1333594573 1568 dbSNP
rs977574122 1573 dbSNP
rs917828787 1579 dbSNP
rs1329818616 1583 dbSNP
rs1449456450 1587 dbSNP
rs1401685316 1590 dbSNP
rs1325737104 1593 dbSNP
rs1403702741 1593 dbSNP
rs1415987356 1598 dbSNP
rs1163885647 1599 dbSNP
rs1469851781 1601 dbSNP
rs1378692101 1602 dbSNP
rs1180337601 1604 dbSNP
rs749880138 1608 dbSNP
rs1412023998 1609 dbSNP
rs1252332775 1619 dbSNP
rs925705869 1623 dbSNP
rs1219222865 1625 dbSNP
rs768287150 1626 dbSNP
rs949256077 1630 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 808.0
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 GSM1065668. RNA binding protein: AGO1. Condition:4-thiouridine ...

- Memczak S; Jens M; Elefsinioti A; Torti F; et al., 2013, Nature.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' acccuGAGGUACGGGGuuc 5'
               |||||||||||   
Target 5' ucucuCUCCAUGCCCCuca 3'
 		1 - 19
Article - Memczak S; Jens M; Elefsinioti A; Torti F; et al.
- Nature, 2013
Circular RNAs (circRNAs) in animals are an enigmatic class of RNA with unknown function. To explore circRNAs systematically, we sequenced and computationally analysed human, mouse and nematode RNA. We detected thousands of well-expressed, stable circRNAs, often showing tissue/developmental-stage-specific expression. Sequence analysis indicated important regulatory functions for circRNAs. We found that a human circRNA, antisense to the cerebellar degeneration-related protein 1 transcript (CDR1as), is densely bound by microRNA (miRNA) effector complexes and harbours 63 conserved binding sites for the ancient miRNA miR-7. Further analyses indicated that CDR1as functions to bind miR-7 in neuronal tissues. Human CDR1as expression in zebrafish impaired midbrain development, similar to knocking down miR-7, suggesting that CDR1as is a miRNA antagonist with a miRNA-binding capacity ten times higher than any other known transcript. Together, our data provide evidence that circRNAs form a large class of post-transcriptional regulators. Numerous circRNAs form by head-to-tail splicing of exons, suggesting previously unrecognized regulatory potential of coding sequences.
LinkOut: [PMID: 23446348]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HCT116
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 ERX177612. RNA binding protein: AGO2. Condition:p53_V_AGO_CLIP_3_2 PAR-CLIP data was present in ERX177633. RNA binding protein: AGO2. Condition:KO_D_AGO_CLIP_4_11 PAR-CLIP data was present in ERX177606. RNA binding protein: AGO2. Condition:KO_V_AGO_CLIP_2_8 ...

- Krell J; Stebbing J; Carissimi C; Dabrowska et al., 2016, Genome research.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' acccuGAGGUACGGGGuuc 5'
               |||||||||||   
Target 5' ucucuCUCCAUGCCCCuca 3'
 		1 - 19
Article - Krell J; Stebbing J; Carissimi C; Dabrowska et al.
- Genome research, 2016
DNA damage activates TP53-regulated surveillance mechanisms that are crucial in suppressing tumorigenesis. TP53 orchestrates these responses directly by transcriptionally modulating genes, including microRNAs (miRNAs), and by regulating miRNA biogenesis through interacting with the DROSHA complex. However, whether the association between miRNAs and AGO2 is regulated following DNA damage is not yet known. Here, we show that, following DNA damage, TP53 interacts with AGO2 to induce or reduce AGO2's association of a subset of miRNAs, including multiple let-7 family members. Furthermore, we show that specific mutations in TP53 decrease rather than increase the association of let-7 family miRNAs, reducing their activity without preventing TP53 from interacting with AGO2. This is consistent with the oncogenic properties of these mutants. Using AGO2 RIP-seq and PAR-CLIP-seq, we show that the DNA damage-induced increase in binding of let-7 family members to the RISC complex is functional. We unambiguously determine the global miRNA-mRNA interaction networks involved in the DNA damage response, validating them through the identification of miRNA-target chimeras formed by endogenous ligation reactions. We find that the target complementary region of the let-7 seed tends to have highly fixed positions and more variable ones. Additionally, we observe that miRNAs, whose cellular abundance or differential association with AGO2 is regulated by TP53, are involved in an intricate network of regulatory feedback and feedforward circuits. TP53-mediated regulation of AGO2-miRNA interaction represents a new mechanism of miRNA regulation in carcinogenesis.
LinkOut: [PMID: 26701625]
CLIP-seq Support 1 for dataset GSM1065668
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / 4-thiouridine, ML_MM_7
Location of target site ENST00000291295.9 | 3UTR | UCUCUCUCCAUGCCCCUCAUCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
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
66 hsa-miR-4260 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT074404 TNRC6A trinucleotide repeat containing 6A 2 2
MIRT289774 PER1 period circadian clock 1 2 2
MIRT442576 HOXD9 homeobox D9 2 2
MIRT443878 CNKSR3 CNKSR family member 3 2 2
MIRT449080 XPO6 exportin 6 2 2
MIRT450294 DRAXIN dorsal inhibitory axon guidance protein 2 2
MIRT461785 FXR2 FMR1 autosomal homolog 2 2 2
MIRT463931 WNT10B Wnt family member 10B 2 2
MIRT464860 UBB ubiquitin B 2 8
MIRT467619 SLC7A5 solute carrier family 7 member 5 2 2
MIRT469649 RAC1 Rac family small GTPase 1 2 2
MIRT473421 MDM4 MDM4, p53 regulator 2 2
MIRT473646 MARCKSL1 MARCKS like 1 2 2
MIRT474213 LCOR ligand dependent nuclear receptor corepressor 2 2
MIRT474335 KMT2D lysine methyltransferase 2D 2 2
MIRT474871 KDELR1 KDEL endoplasmic reticulum protein retention receptor 1 2 2
MIRT477440 ELOVL5 ELOVL fatty acid elongase 5 2 2
MIRT478432 DAZAP2 DAZ associated protein 2 2 2
MIRT479851 CCDC6 coiled-coil domain containing 6 2 2
MIRT482507 ACTB actin beta 2 2
MIRT485473 IGF1R insulin like growth factor 1 receptor 2 8
MIRT485670 CCDC64 BICD family like cargo adaptor 1 2 4
MIRT485902 PGPEP1 pyroglutamyl-peptidase I 2 4
MIRT488143 PRRC2B proline rich coiled-coil 2B 2 4
MIRT489455 MSC musculin 2 2
MIRT509568 HIST2H2AB histone cluster 2 H2A family member b 2 4
MIRT513093 DYNAP dynactin associated protein 2 2
MIRT513256 CALM3 calmodulin 3 2 2
MIRT514356 UBBP4 ubiquitin B pseudogene 4 2 6
MIRT522019 PAQR3 progestin and adipoQ receptor family member 3 2 4
MIRT523164 HIST3H3 histone cluster 3 H3 2 2
MIRT523297 HIST1H1B histone cluster 1 H1 family member b 2 2
MIRT524782 BAG5 BCL2 associated athanogene 5 2 2
MIRT530921 SCIN scinderin 2 2
MIRT533302 USP44 ubiquitin specific peptidase 44 2 2
MIRT552782 YIPF4 Yip1 domain family member 4 2 4
MIRT553981 SRPR SRP receptor alpha subunit 2 2
MIRT563126 ZNF215 zinc finger protein 215 2 2
MIRT569025 IL21R interleukin 21 receptor 2 2
MIRT573413 RPL18A ribosomal protein L18a 2 2
MIRT574877 Dnajc6 DnaJ heat shock protein family (Hsp40) member C6 2 3
MIRT607538 GLI2 GLI family zinc finger 2 2 2
MIRT607682 MAPK10 mitogen-activated protein kinase 10 2 3
MIRT623791 GK5 glycerol kinase 5 (putative) 2 2
MIRT628834 FAM151B family with sequence similarity 151 member B 2 2
MIRT635547 LEPREL1 prolyl 3-hydroxylase 2 2 2
MIRT635698 NMNAT2 nicotinamide nucleotide adenylyltransferase 2 2 2
MIRT635906 ARPC1B actin related protein 2/3 complex subunit 1B 2 2
MIRT649985 MSI1 musashi RNA binding protein 1 2 2
MIRT654900 POMGNT1 protein O-linked mannose N-acetylglucosaminyltransferase 1 (beta 1,2-) 2 2
MIRT655116 PHF7 PHD finger protein 7 2 2
MIRT658958 DNAJC6 DnaJ heat shock protein family (Hsp40) member C6 2 3
MIRT659665 CDC42EP4 CDC42 effector protein 4 2 2
MIRT668946 CNBP CCHC-type zinc finger nucleic acid binding protein 2 2
MIRT691164 APOL6 apolipoprotein L6 2 2
MIRT692696 MEAF6 MYST/Esa1 associated factor 6 2 2
MIRT693245 HBS1L HBS1 like translational GTPase 2 2
MIRT695203 SCAMP3 secretory carrier membrane protein 3 2 2
MIRT701957 MINK1 misshapen like kinase 1 2 2
MIRT706802 APOL4 apolipoprotein L4 2 2
MIRT716899 CACNB2 calcium voltage-gated channel auxiliary subunit beta 2 2 2
MIRT717632 HLX H2.0 like homeobox 2 2
MIRT719052 ZNF281 zinc finger protein 281 2 2
MIRT722973 GDE1 glycerophosphodiester phosphodiesterase 1 2 2
MIRT723643 RPTN repetin 2 2
MIRT734708 NR3C2 nuclear receptor subfamily 3 group C member 2 4 0
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-4260 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-4260 Neoadjuvant chemotherapy resistant tissue (breast cancer)
hsa-miR-4260 Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (100 ng/ml)
hsa-miR-4260 Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)
hsa-miR-4260 Paclitaxel/Docetaxel/Vinorelbine/Doxorubicin/Etoposide resistant cell line (Bads-200)

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