pre-miRNA Information
pre-miRNA hsa-mir-4291   
Genomic Coordinates chr9: 93819357 - 93819421
Description Homo sapiens miR-4291 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4291
Sequence 11| UUCAGCAGGAACAGCU |26
Evidence Experimental
Experiments SOLiD
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1265713434 9 dbSNP
rs1433969451 12 dbSNP
rs1372852268 16 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol NPTN   
Synonyms GP55, GP65, SDFR1, SDR1, np55, np65
Description neuroplastin
Transcript NM_001161363   
Other Transcripts NM_001161364 , NM_012428 , NM_017455   
Expression
Putative miRNA Targets on NPTN
3'UTR of NPTN
(miRNA target sites are highlighted)
>NPTN|NM_001161363|3'UTR
   1 GTACTGCTTACAATATCTTTAGGTTCCTGAAACTGGTGGCAACATGACCTGCTAAAATTTTCTGCTTGGACCTCTTTGGT
  81 TCTCTCCCCTTTCAAGTGAGCAACACCACAATGACTGTCTAAAGCATGCCTTATTTAGCCTCTCCTGTAAGGGTGATCTA
 161 GCCAGGTACATTTTAAACAATGCTTCAGTGTAGAAGGTGTAAACTATTTTGGGCTTGATGTGCTGTGAATGTTGCTTTTT
 241 TTTTTCCTTTGTTAAAATATTTAAATAGAAGTGAAAAGGTCCTCTGAGGATCAGATCATGCATGCGCCATTTTTTACTTA
 321 ATGCAGCTGTTAAATTGGCAAAGCTCTAAAATGCACTGCTGCCATCTAGTGATACACTTTTGTAAAGTACAGCAAAACCT
 401 ACAGATATATACAGTATATAAATATATATATATATATATTTATATTTTTGGGGGTGGGAGAAATCCAAAATAAAGTAAAT
 481 GCTTGTTTCATTTTTAAGCTGCTGATATTCATTCCTTATTGTATGTTGTCAGATGAGGAAATTGTGCAGTTCTGGTACAT
 561 AAAGATGAGTAATATAAACTGAAATCTATAATTTTAAGGGCTTAACCTGTGACTTTAATAAGCTGGAACAGTCCACTGAA
 641 TGGGTATAATGAATTGCAGTATATACGTATGATTGCTTTTTAAGTGATTATCTTTTCTTCTGTTAAGTCATGTAAATTCA
 721 TAAATCCTTTTGCACTGATGTGTTGAACCTTATTCTTGTACATTCATTCAATCAAGGCAAACTTTTATAATTTTTCTTTT
 801 GTTTCCAATGACCTTGAAATGTTATAGCATGGTAATATTCTATGCAACTATAGTTATACTTTTTGGTTTGACACTGTATT
 881 TTTTCACATTGATTTACTGGTTGATGATAGATTTTATAACCTAACGGTTCTCATGCGGTGCGTAATTGTAGATGCATGTA
 961 CTTGTGTGTTTTGTGTAATTATTGAAGTGCAATGATGTATAAAAAAGTGGATTCACCTGTTTTTAAAAATAAAACATTGA
1041 TAAAAGGTGTTTGGATAATA
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' ucgACAAG---GACGACUu 5'
             | ||:   ||||||| 
Target 5' tcaTTTTTAAGCTGCTGAt 3'
488 - 506 141.00 -9.80
2
miRNA  3' ucgacaagGACGACuu 5'
                  ||||||  
Target 5' aaaatgcaCTGCTGcc 3'
348 - 363 120.00 -8.10
3
miRNA  3' ucgacaaGGACGACUu 5'
                 |||||| | 
Target 5' aacatgaCCTGCTAAa 3'
41 - 56 113.00 -8.60
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN8176465 166 COSMIC
COSN26401123 201 COSMIC
COSN8176464 306 COSMIC
COSN5756480 315 COSMIC
COSN23741472 507 COSMIC
COSN1684086 572 COSMIC
COSN1684084 780 COSMIC
COSN26105036 790 COSMIC
COSN31490514 909 COSMIC
COSN28673588 962 COSMIC
COSN8477769 1025 COSMIC
COSN19294450 1106 COSMIC
COSN8477768 1153 COSMIC
COSN31482716 1336 COSMIC
COSN26649855 1377 COSMIC
COSN31579161 1575 COSMIC
COSN31570977 1643 COSMIC
COSN6279719 1705 COSMIC
COSN8590331 1779 COSMIC
COSN31564030 1789 COSMIC
COSN31609906 1890 COSMIC
COSN31565184 1893 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs375565473 1 dbSNP
rs764516729 3 dbSNP
rs373487999 10 dbSNP
rs1357895767 12 dbSNP
rs1313020236 13 dbSNP
rs1336387769 14 dbSNP
rs763262357 14 dbSNP
rs1368320534 19 dbSNP
rs775968558 26 dbSNP
rs1462326108 31 dbSNP
rs1293772434 33 dbSNP
rs773128397 42 dbSNP
rs1447212237 44 dbSNP
rs1338444250 47 dbSNP
rs992276758 48 dbSNP
rs770181597 49 dbSNP
rs759868547 50 dbSNP
rs1398153895 53 dbSNP
rs375541627 56 dbSNP
rs1327595389 62 dbSNP
rs1333536236 63 dbSNP
rs1417099096 65 dbSNP
rs976580162 69 dbSNP
rs959440685 71 dbSNP
rs966115032 71 dbSNP
rs912423081 72 dbSNP
rs1340319621 86 dbSNP
rs1033702854 87 dbSNP
rs1486699476 91 dbSNP
rs1391622222 99 dbSNP
rs985250904 103 dbSNP
rs953991214 104 dbSNP
rs1021477345 108 dbSNP
rs145276366 115 dbSNP
rs903821364 115 dbSNP
rs1374651848 116 dbSNP
rs1475531173 130 dbSNP
rs1296829232 133 dbSNP
rs1409554486 135 dbSNP
rs571447016 151 dbSNP
rs190565866 170 dbSNP
rs1394869680 172 dbSNP
rs1298168638 177 dbSNP
rs1327401454 195 dbSNP
rs1226883108 199 dbSNP
rs186145104 201 dbSNP
rs1040518650 202 dbSNP
rs955721464 205 dbSNP
rs1031303462 212 dbSNP
rs1235080458 212 dbSNP
rs1485303677 212 dbSNP
rs1263517310 215 dbSNP
rs200122152 221 dbSNP
rs1367960273 235 dbSNP
rs1387963058 235 dbSNP
rs567587447 236 dbSNP
rs1455337373 243 dbSNP
rs1173710566 248 dbSNP
rs1394012462 248 dbSNP
rs140941304 249 dbSNP
rs1421132524 257 dbSNP
rs777069389 264 dbSNP
rs768962277 269 dbSNP
rs1386077244 272 dbSNP
rs1382029490 274 dbSNP
rs1319017438 282 dbSNP
rs1373436019 283 dbSNP
rs1044994112 293 dbSNP
rs1235389138 294 dbSNP
rs930324399 297 dbSNP
rs1345838350 298 dbSNP
rs1230891955 304 dbSNP
rs762695808 305 dbSNP
rs1482594745 306 dbSNP
rs918890197 311 dbSNP
rs1246037404 316 dbSNP
rs972398727 317 dbSNP
rs949988606 318 dbSNP
rs917126331 320 dbSNP
rs991301738 322 dbSNP
rs959470428 323 dbSNP
rs888053308 326 dbSNP
rs1453721560 327 dbSNP
rs1157397257 334 dbSNP
rs1049354810 344 dbSNP
rs979485266 351 dbSNP
rs1285924689 355 dbSNP
rs761099645 361 dbSNP
rs968463023 366 dbSNP
rs919253333 367 dbSNP
rs1264360718 372 dbSNP
rs1307857548 380 dbSNP
rs1040372010 392 dbSNP
rs1227769382 399 dbSNP
rs772672764 402 dbSNP
rs944818866 403 dbSNP
rs910623283 408 dbSNP
rs1213882864 412 dbSNP
rs1010275322 418 dbSNP
rs1487327136 420 dbSNP
rs1239075013 424 dbSNP
rs1178395605 425 dbSNP
rs1318389943 427 dbSNP
rs902076583 428 dbSNP
rs1180669998 431 dbSNP
rs1420393937 433 dbSNP
rs7163212 442 dbSNP
rs953895814 453 dbSNP
rs10851862 455 dbSNP
rs144431827 456 dbSNP
rs1048800596 460 dbSNP
rs1372715815 469 dbSNP
rs1409066790 480 dbSNP
rs1286411310 481 dbSNP
rs955945844 496 dbSNP
rs181152849 501 dbSNP
rs1002535701 502 dbSNP
rs1319543924 504 dbSNP
rs777349132 508 dbSNP
rs971584066 509 dbSNP
rs1022703428 510 dbSNP
rs1251329597 511 dbSNP
rs769865004 511 dbSNP
rs1036025545 523 dbSNP
rs1260258272 530 dbSNP
rs149254446 530 dbSNP
rs543632088 534 dbSNP
rs1187640713 535 dbSNP
rs887953331 546 dbSNP
rs917157552 547 dbSNP
rs1171401445 559 dbSNP
rs1343701870 566 dbSNP
rs1427926825 584 dbSNP
rs1049219245 586 dbSNP
rs1314892450 592 dbSNP
rs531840638 594 dbSNP
rs1415391391 596 dbSNP
rs1302036537 607 dbSNP
rs1376723792 607 dbSNP
rs1215895945 610 dbSNP
rs1472178860 616 dbSNP
rs1340785259 619 dbSNP
rs1429737775 627 dbSNP
rs1281891959 630 dbSNP
rs993788304 634 dbSNP
rs1201236780 648 dbSNP
rs781184080 651 dbSNP
rs898068597 653 dbSNP
rs1187281281 664 dbSNP
rs1419043214 666 dbSNP
rs1447929534 668 dbSNP
rs561258295 669 dbSNP
rs1040804535 670 dbSNP
rs1340855433 676 dbSNP
rs190255722 679 dbSNP
rs746323427 679 dbSNP
rs572401689 682 dbSNP
rs944704106 683 dbSNP
rs1289282071 689 dbSNP
rs1363971648 700 dbSNP
rs889089580 700 dbSNP
rs1050481432 710 dbSNP
rs34685693 714 dbSNP
rs1304916592 715 dbSNP
rs1265920024 717 dbSNP
rs1219112725 719 dbSNP
rs946771564 722 dbSNP
rs979961454 723 dbSNP
rs1207708263 725 dbSNP
rs1216913360 732 dbSNP
rs1323719614 733 dbSNP
rs914411205 738 dbSNP
rs1231473461 740 dbSNP
rs1253635993 748 dbSNP
rs1477759436 749 dbSNP
rs968159240 751 dbSNP
rs1331074264 756 dbSNP
rs1296892059 760 dbSNP
rs7168262 765 dbSNP
rs545469477 766 dbSNP
rs770207379 776 dbSNP
rs934608567 776 dbSNP
rs1319889494 783 dbSNP
rs924539745 787 dbSNP
rs981539440 793 dbSNP
rs1455256292 796 dbSNP
rs988147723 798 dbSNP
rs1371028743 799 dbSNP
rs971105955 799 dbSNP
rs1272609144 800 dbSNP
rs1019174547 802 dbSNP
rs1267830138 805 dbSNP
rs578156072 809 dbSNP
rs1007726936 811 dbSNP
rs1193794471 816 dbSNP
rs1022608617 818 dbSNP
rs1245671179 821 dbSNP
rs1196808848 824 dbSNP
rs1187323181 829 dbSNP
rs1471112933 832 dbSNP
rs1182815672 837 dbSNP
rs1410900366 852 dbSNP
rs1455463412 854 dbSNP
rs1461514972 861 dbSNP
rs1390961532 868 dbSNP
rs1027770848 869 dbSNP
rs1199146432 876 dbSNP
rs1320992693 884 dbSNP
rs1355782824 889 dbSNP
rs991239734 893 dbSNP
rs1288309136 894 dbSNP
rs1348966852 901 dbSNP
rs951772438 902 dbSNP
rs751347285 903 dbSNP
rs1235505283 904 dbSNP
rs1027858316 906 dbSNP
rs993666109 916 dbSNP
rs1335996680 918 dbSNP
rs1252474165 925 dbSNP
rs1355909323 925 dbSNP
rs1275137169 935 dbSNP
rs898094324 936 dbSNP
rs1036465276 939 dbSNP
rs1013932847 941 dbSNP
rs1250957758 943 dbSNP
rs1019209306 950 dbSNP
rs1363567175 951 dbSNP
rs1296988090 957 dbSNP
rs117439586 962 dbSNP
rs1472224947 965 dbSNP
rs1161095414 976 dbSNP
rs1385316730 989 dbSNP
rs1332412305 991 dbSNP
rs1429860422 996 dbSNP
rs1055721314 1000 dbSNP
rs1394133844 1011 dbSNP
rs1401231837 1013 dbSNP
rs185788844 1027 dbSNP
rs1313859016 1028 dbSNP
rs1050350349 1031 dbSNP
rs1340263169 1035 dbSNP
rs1242829325 1036 dbSNP
rs10766 1038 dbSNP
rs1272168034 1046 dbSNP
rs946843561 1054 dbSNP
rs1227718902 1060 dbSNP
rs925818172 1064 dbSNP
rs1042879297 1066 dbSNP
rs750508657 1072 dbSNP
rs946821478 1073 dbSNP
rs914003750 1074 dbSNP
rs180851622 1092 dbSNP
rs1387845033 1093 dbSNP
rs911859812 1093 dbSNP
rs966020361 1093 dbSNP
rs3088002 1094 dbSNP
rs757230211 1095 dbSNP
rs1444692158 1098 dbSNP
rs953627055 1116 dbSNP
rs546972419 1117 dbSNP
rs1401881427 1118 dbSNP
rs1394629333 1119 dbSNP
rs1244654583 1120 dbSNP
rs1320737706 1121 dbSNP
rs1054246616 1127 dbSNP
rs1366194921 1132 dbSNP
rs1028260350 1137 dbSNP
rs1295416601 1144 dbSNP
rs567525436 1148 dbSNP
rs139498570 1152 dbSNP
rs1441412141 1153 dbSNP
rs962491189 1165 dbSNP
rs1251700829 1168 dbSNP
rs1198487528 1171 dbSNP
rs1263672435 1172 dbSNP
rs1197870123 1183 dbSNP
rs1465058511 1184 dbSNP
rs60899283 1190 dbSNP
rs1340708081 1191 dbSNP
rs1274517392 1197 dbSNP
rs924416904 1199 dbSNP
rs1245597182 1207 dbSNP
rs1455209526 1212 dbSNP
rs1199012799 1214 dbSNP
rs1246869477 1216 dbSNP
rs867530654 1222 dbSNP
rs1013971363 1224 dbSNP
rs1282711170 1237 dbSNP
rs1389854563 1237 dbSNP
rs1318817629 1240 dbSNP
rs1373229758 1251 dbSNP
rs949967339 1252 dbSNP
rs1300732581 1254 dbSNP
rs1330449025 1255 dbSNP
rs1336518762 1255 dbSNP
rs1262212866 1259 dbSNP
rs1329612504 1261 dbSNP
rs1207670010 1278 dbSNP
rs915619269 1285 dbSNP
rs1001478228 1287 dbSNP
rs1043339257 1287 dbSNP
rs1055467977 1287 dbSNP
rs1209907407 1287 dbSNP
rs1265824003 1287 dbSNP
rs1413107616 1287 dbSNP
rs141791426 1287 dbSNP
rs1469566812 1287 dbSNP
rs1421009224 1291 dbSNP
rs1410937229 1293 dbSNP
rs1458668029 1295 dbSNP
rs1329320637 1300 dbSNP
rs1411393940 1302 dbSNP
rs1293007114 1322 dbSNP
rs1388686859 1323 dbSNP
rs1384940797 1326 dbSNP
rs533887040 1326 dbSNP
rs1227520169 1327 dbSNP
rs1350832382 1327 dbSNP
rs945919897 1327 dbSNP
rs891585274 1329 dbSNP
rs1368684058 1336 dbSNP
rs1323130044 1337 dbSNP
rs1221862391 1343 dbSNP
rs991144715 1349 dbSNP
rs1487235532 1350 dbSNP
rs951803646 1352 dbSNP
rs368097011 1355 dbSNP
rs972199122 1356 dbSNP
rs962246744 1361 dbSNP
rs1180470394 1362 dbSNP
rs1424818631 1362 dbSNP
rs944784986 1365 dbSNP
rs1420552668 1373 dbSNP
rs552018064 1378 dbSNP
rs1019494664 1379 dbSNP
rs1366755291 1382 dbSNP
rs1009156751 1386 dbSNP
rs1308755946 1387 dbSNP
rs986074999 1391 dbSNP
rs932263760 1397 dbSNP
rs920867351 1398 dbSNP
rs889365639 1405 dbSNP
rs1311596629 1406 dbSNP
rs1319601106 1412 dbSNP
rs962236715 1416 dbSNP
rs1015471247 1422 dbSNP
rs992619232 1429 dbSNP
rs115349578 1435 dbSNP
rs1363974454 1442 dbSNP
rs1239510162 1448 dbSNP
rs1483802053 1452 dbSNP
rs1181450899 1459 dbSNP
rs1254312200 1460 dbSNP
rs1430587707 1464 dbSNP
rs1034046886 1465 dbSNP
rs868246662 1479 dbSNP
rs551122684 1482 dbSNP
rs1360630396 1490 dbSNP
rs1010850906 1501 dbSNP
rs893916959 1506 dbSNP
rs1482268033 1508 dbSNP
rs532836758 1513 dbSNP
rs1251806839 1514 dbSNP
rs1297625595 1515 dbSNP
rs79810075 1516 dbSNP
rs1021546940 1523 dbSNP
rs1281376173 1528 dbSNP
rs1287832709 1529 dbSNP
rs1313349283 1532 dbSNP
rs747467348 1533 dbSNP
rs1209848070 1537 dbSNP
rs867954879 1538 dbSNP
rs891661648 1539 dbSNP
rs1041272856 1543 dbSNP
rs903025068 1545 dbSNP
rs1447753373 1549 dbSNP
rs1195626697 1552 dbSNP
rs1427138424 1558 dbSNP
rs1227762797 1561 dbSNP
rs1175079995 1565 dbSNP
rs1357231269 1573 dbSNP
rs530241282 1577 dbSNP
rs944816109 1579 dbSNP
rs1045971875 1581 dbSNP
rs950030087 1582 dbSNP
rs1281467400 1587 dbSNP
rs1050440223 1588 dbSNP
rs1432237093 1588 dbSNP
rs1348389104 1590 dbSNP
rs1368897878 1605 dbSNP
rs568615921 1608 dbSNP
rs549923581 1609 dbSNP
rs566113922 1610 dbSNP
rs1299562024 1617 dbSNP
rs1331690559 1620 dbSNP
rs930312459 1623 dbSNP
rs547453374 1624 dbSNP
rs1463743007 1632 dbSNP
rs1223861797 1633 dbSNP
rs1247427657 1634 dbSNP
rs756317119 1634 dbSNP
rs1321041648 1636 dbSNP
rs1190559202 1639 dbSNP
rs1426895260 1639 dbSNP
rs1190133712 1640 dbSNP
rs1043555 1643 dbSNP
rs1159695822 1644 dbSNP
rs1404214295 1646 dbSNP
rs771981201 1648 dbSNP
rs1160910975 1652 dbSNP
rs971845385 1657 dbSNP
rs1471855041 1659 dbSNP
rs1411697571 1661 dbSNP
rs1324881393 1666 dbSNP
rs1200527248 1668 dbSNP
rs1436339877 1670 dbSNP
rs992986039 1678 dbSNP
rs1352912957 1681 dbSNP
rs960168685 1685 dbSNP
rs1288188714 1687 dbSNP
rs1034120595 1688 dbSNP
rs962061565 1689 dbSNP
rs1021702080 1692 dbSNP
rs1220678075 1693 dbSNP
rs1266659354 1698 dbSNP
rs1182626838 1703 dbSNP
rs1263168017 1703 dbSNP
rs1410971398 1704 dbSNP
rs1220989927 1717 dbSNP
rs1164668140 1719 dbSNP
rs1043574 1720 dbSNP
rs1413817732 1725 dbSNP
rs201878917 1725 dbSNP
rs1321053975 1729 dbSNP
rs891688103 1733 dbSNP
rs912105577 1735 dbSNP
rs1286689864 1749 dbSNP
rs189356212 1755 dbSNP
rs1285027849 1756 dbSNP
rs750267862 1756 dbSNP
rs764635002 1759 dbSNP
rs1276945486 1760 dbSNP
rs761296417 1760 dbSNP
rs1344152202 1762 dbSNP
rs1491157320 1762 dbSNP
rs1491267074 1763 dbSNP
rs1435889306 1766 dbSNP
rs1328677919 1768 dbSNP
rs866925319 1772 dbSNP
rs1472298038 1773 dbSNP
rs1223850183 1774 dbSNP
rs1043589 1777 dbSNP
rs543285309 1783 dbSNP
rs760998251 1784 dbSNP
rs528011131 1787 dbSNP
rs377536307 1788 dbSNP
rs768246402 1789 dbSNP
rs1031386070 1793 dbSNP
rs899195732 1795 dbSNP
rs1321897996 1797 dbSNP
rs1043586 1798 dbSNP
rs1340093443 1817 dbSNP
rs1455330735 1817 dbSNP
rs1387393731 1820 dbSNP
rs1446169301 1820 dbSNP
rs1299828367 1824 dbSNP
rs1366055872 1829 dbSNP
rs1177643005 1831 dbSNP
rs1273793123 1831 dbSNP
rs1337412860 1836 dbSNP
rs1279135388 1840 dbSNP
rs999654894 1840 dbSNP
rs1441425721 1844 dbSNP
rs185604985 1848 dbSNP
rs1423753357 1854 dbSNP
rs1191116307 1855 dbSNP
rs1187445106 1857 dbSNP
rs1475988537 1857 dbSNP
rs1371817925 1861 dbSNP
rs1468092455 1878 dbSNP
rs779057991 1881 dbSNP
rs1249993109 1888 dbSNP
rs1186696055 1894 dbSNP
rs1401948286 1895 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 27020.0
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' ucgACAAG---GACGACuu 5'
             | ||:   ||||||  
Target 5' ucaUUUUUAAGCUGCUG-- 3'
3 - 19
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 GSM4903833
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_a
Location of target site NM_017455 | 3UTR | AACCUACAGAUAUAUACAGUAUAUAAAUAUAUAUAUAUAUAUAUUUAUAUUUUUGGGGGUGGGAGAAAUCCAAAAUAAAGUAAAUGCUUGUUUCAUUUUUAAGCUGCUGAUAUUCAUUCCUUAUUGUAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4903834
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_b
Location of target site NM_017455 | 3UTR | UAUAUUUAUAUUUUUGGGGGUGGGAGAAAUCCAAAAUAAAGUAAAUGCUUGUUUCAUUUUUAAGCUGCUGAUAUUCAUUCCUUAUUGUAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4903835
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_c
Location of target site NM_017455 | 3UTR | UAUAUUUAUAUUUUUGGGGGUGGGAGAAAUCCAAAAUAAAGUAAAUGCUUGUUUCAUUUUUAAGCUGCUGAUAUUCAUUCCUUAUUGUAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4903836
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_a
Location of target site NM_017455 | 3UTR | GUAUAUAAAUAUAUAUAUAUAUAUAUUUAUAUUUUUGGGGGUGGGAGAAAUCCAAAAUAAAGUAAAUGCUUGUUUCAUUUUUAAGCUGCUGAUAUUCAUUCCUUAUUGUAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM4903837
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_b
Location of target site NM_012428 | 3UTR | AUUUAUAUUUUUGGGGGUGGGAGAAAUCCAAAAUAAAGUAAAUGCUUGUUUCAUUUUUAAGCUGCUGAUAUUCAUUCCUUAUUGUAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM4903838
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_c
Location of target site NM_017455 | 3UTR | UAUAUAUAUUUAUAUUUUUGGGGGUGGGAGAAAUCCAAAAUAAAGUAAAUGCUUGUUUCAUUUUUAAGCUGCUGAUAUUCAUUCCUUAUUGUAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM714645
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repB
Location of target site ENST00000345330.4 | 3UTR | UUUCAUUUUUAAGCUGCUG
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
82 hsa-miR-4291 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT102445 CALU calumenin 2 4
MIRT108677 ZBTB33 zinc finger and BTB domain containing 33 2 4
MIRT125969 SHOC2 SHOC2, leucine rich repeat scaffold protein 2 6
MIRT179018 PAFAH1B2 platelet activating factor acetylhydrolase 1b catalytic subunit 2 2 4
MIRT379033 CDK6 cyclin dependent kinase 6 2 6
MIRT442473 CPEB4 cytoplasmic polyadenylation element binding protein 4 2 2
MIRT442910 PCBD2 pterin-4 alpha-carbinolamine dehydratase 2 2 2
MIRT442979 ZNF736 zinc finger protein 736 2 2
MIRT445663 TNFSF15 TNF superfamily member 15 2 2
MIRT446237 FZD6 frizzled class receptor 6 2 2
MIRT448860 FAM49B family with sequence similarity 49 member B 2 2
MIRT455559 TRAF1 TNF receptor associated factor 1 2 2
MIRT459704 ZNF641 zinc finger protein 641 2 2
MIRT460608 FEM1A fem-1 homolog A 2 2
MIRT462251 LAMA4 laminin subunit alpha 4 2 2
MIRT462469 FIZ1 FLT3 interacting zinc finger 1 2 2
MIRT466656 TAF1D TATA-box binding protein associated factor, RNA polymerase I subunit D 2 6
MIRT466841 STX6 syntaxin 6 2 2
MIRT471403 PDP2 pyruvate dehyrogenase phosphatase catalytic subunit 2 2 2
MIRT471517 PCGF3 polycomb group ring finger 3 2 2
MIRT471681 PABPN1 poly(A) binding protein nuclear 1 2 2
MIRT472858 MTHFD2 methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2, methenyltetrahydrofolate cyclohydrolase 2 2
MIRT474813 KIAA0226 RUN and cysteine rich domain containing beclin 1 interacting protein 2 2
MIRT474931 KCTD15 potassium channel tetramerization domain containing 15 2 2
MIRT475814 HDGF heparin binding growth factor 2 2
MIRT480434 C17orf49 chromosome 17 open reading frame 49 2 2
MIRT480903 BCL2L2-PABPN1 BCL2L2-PABPN1 readthrough 2 2
MIRT481478 ARL8B ADP ribosylation factor like GTPase 8B 2 2
MIRT484982 UBE2V1 ubiquitin conjugating enzyme E2 V1 2 8
MIRT485019 TMEM189-UBE2V1 TMEM189-UBE2V1 readthrough 2 8
MIRT485036 TMEM189 transmembrane protein 189 2 8
MIRT495074 HEYL hes related family bHLH transcription factor with YRPW motif-like 2 2
MIRT496004 CD180 CD180 molecule 2 2
MIRT500675 TRIM37 tripartite motif containing 37 2 2
MIRT504544 ZNF417 zinc finger protein 417 2 6
MIRT506782 KLHL15 kelch like family member 15 2 6
MIRT507256 FGF2 fibroblast growth factor 2 2 6
MIRT507386 EN2 engrailed homeobox 2 2 2
MIRT512505 BTBD19 BTB domain containing 19 2 2
MIRT516903 CTSB cathepsin B 2 2
MIRT528124 PPP1R10 protein phosphatase 1 regulatory subunit 10 2 2
MIRT528874 ATF3 activating transcription factor 3 2 2
MIRT536091 MBOAT2 membrane bound O-acyltransferase domain containing 2 2 2
MIRT541079 RLIM ring finger protein, LIM domain interacting 2 2
MIRT541099 RAF1 Raf-1 proto-oncogene, serine/threonine kinase 2 2
MIRT545360 LIN7C lin-7 homolog C, crumbs cell polarity complex component 2 2
MIRT545831 ZNF367 zinc finger protein 367 2 4
MIRT547115 PHLPP2 PH domain and leucine rich repeat protein phosphatase 2 2 2
MIRT547312 NPTN neuroplastin 2 2
MIRT547959 HIGD1A HIG1 hypoxia inducible domain family member 1A 2 4
MIRT549943 RPL7L1 ribosomal protein L7 like 1 2 2
MIRT550749 ENTPD1 ectonucleoside triphosphate diphosphohydrolase 1 2 2
MIRT565145 TUBB2A tubulin beta 2A class IIa 2 2
MIRT571050 POLQ DNA polymerase theta 2 2
MIRT571361 ZNF45 zinc finger protein 45 2 2
MIRT610133 FOXI2 forkhead box I2 2 2
MIRT613145 DSE dermatan sulfate epimerase 2 2
MIRT613379 ABCC12 ATP binding cassette subfamily C member 12 2 2
MIRT615752 C6 complement C6 2 2
MIRT616460 ADRA2B adrenoceptor alpha 2B 2 2
MIRT616719 FEM1B fem-1 homolog B 2 2
MIRT618312 IPP intracisternal A particle-promoted polypeptide 2 2
MIRT631491 RASSF4 Ras association domain family member 4 2 2
MIRT643134 PLCXD2 phosphatidylinositol specific phospholipase C X domain containing 2 2 2
MIRT643482 DISC1 disrupted in schizophrenia 1 2 2
MIRT649715 TWSG1 twisted gastrulation BMP signaling modulator 1 2 2
MIRT653542 SLC38A7 solute carrier family 38 member 7 2 2
MIRT666307 SLC22A3 solute carrier family 22 member 3 2 2
MIRT692005 NAP1L4 nucleosome assembly protein 1 like 4 2 2
MIRT696838 ARL2BP ADP ribosylation factor like GTPase 2 binding protein 2 2
MIRT698204 TMEM248 transmembrane protein 248 2 2
MIRT703316 GDPD5 glycerophosphodiester phosphodiesterase domain containing 5 2 2
MIRT709376 FAM13A family with sequence similarity 13 member A 2 2
MIRT710112 MED23 mediator complex subunit 23 2 2
MIRT711975 HOMER2 homer scaffolding protein 2 2 2
MIRT712275 PPIP5K2 diphosphoinositol pentakisphosphate kinase 2 2 2
MIRT714108 TMED9 transmembrane p24 trafficking protein 9 2 2
MIRT719113 MAML1 mastermind like transcriptional coactivator 1 2 2
MIRT719727 SLC39A11 solute carrier family 39 member 11 2 2
MIRT720018 TFAP2C transcription factor AP-2 gamma 2 2
MIRT720358 ZBTB8B zinc finger and BTB domain containing 8B 2 2
MIRT720372 NUDT3 nudix hydrolase 3 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-4291 Platinum-based doublet chemotherapy resistant High Lung Adenocarcinoma tissue
hsa-miR-4291 Platinum 23939 resistant High Ovarian Cancer tissue
hsa-miR-4291 Paclitaxel 36314 NSC125973 approved resistant High Prostate Cancer cell line (DU-145, PC-3)
hsa-miR-4291 Doxorubicin 31703 NSC123127 approved resistant High Chronic Myelogenous Leukemia cell line (K562)
hsa-miR-4291 Radioactivity Iodine resistant High Papillary Thyroid Cancer tissue
hsa-miR-4291 Cisplatin 5460033 NSC119875 approved resistant High Hypopharyngeal Cancer cell line (FaDu)
hsa-miR-4291 Gefitinib 123631 NSC715055 approved resistant cell line (PC9)
hsa-miR-4291 Osimertinib 71496458 NSC779217 approved resistant cell line (PC9)
hsa-miR-4291 Cisplatin 5460033 NSC119875 approved sensitive cell line (CAL-27) (cytosolic RNA)
hsa-miR-4291 Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)
hsa-miR-4291 Platinum-based doublet chemotherapy resistant tissue (lung adenocarcinoma)
hsa-miR-4291 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-4291 Gemcitabine 60750 NSC613327 approved resistant cell line (Panc1-GR3)
hsa-miR-4291 Gemcitabine 60750 NSC613327 approved resistant cell line (Panc1-GR4)

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