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 TMED9   
Synonyms GMP25, HSGP25L2G, p24a2, p24alpha2, p25
Description transmembrane p24 trafficking protein 9
Transcript NM_017510   
Expression
Putative miRNA Targets on TMED9
3'UTR of TMED9
(miRNA target sites are highlighted)
>TMED9|NM_017510|3'UTR
   1 CTGTCCCAGGCGTCACAACCCATCCTCCCAGGCTGGGGGAGAAAGGACCTCCTGGAACTGACTTCTTCTGTCAGGAGGAC
  81 TGGTTTCCAGCCATACCTGTTCTGGAAGGGAGAGGGGCTGGAGGCACCCACAGGCACAAGCTGAAGGCAGCAGCTTGGCT
 161 AATACTGAGCAGGTAGTGGGGCAAATTCCTGCCCTCTCTCTCTGGCCTCTGGGCCGTTTGGTAGTAATCACCCAAGGGCT
 241 GGTAAAGCCCCTCCTCTTGGCACCTCAGAATCACAGTGTTACTGATCAGGGATGTGAGGCTGCTGTTGGGGGTGGGGGGA
 321 GGGGAATGGGCAGGCAAGCCAGTCTTCTGTCTTCCTTTGCTAACTTAGGGTTTTGAGCAGGTTGGGGTATGGTGCCTGTC
 401 ATACCCACCTGCCACCCTGGGAACCTCACTGTTCTCTCTTTCAGCCTAGACCTGCTGATCCAGGGTGTGTGTGAGTTGAG
 481 GGTGGGTGGAGGGGTTTGCAGTGTGGGAATGTGGCCCTGCAGTTGACCTGAGCTGCTTCACATGGTTGTCCATTCTGGGG
 561 CTTAAAGAACTGGGACCAGACCAAGTAGAGGCCTTGGTGCTGGTTGGGGTGGGGCCTGCAGAGTCTTAGTTACTGATTTC
 641 ATTTTCAATAAATGTAGGTTTGTTACATGAGTTTCCCAATAAAAAAAAAAATGACTTCTTGTCCAGTGCAAGTGACTCAG
 721 TCATCAGTGGGCACACACTGCAGGGTGCCTCAGGGAATGCCAGTTCTTCCAAAGAGCAAAGCACTTCACATTCCAAAGTG
 801 AATTCCCACCAGTCAGCTTCATTCTTTCCTTCTTCTCCAGGCCTTCCTGTGGCAGGGAATAGTGGGTTTGTCCAAGATTA
 881 TACAACAAGTAAATTGGGCTGGGGCTCAAATTTACACCCTTTCCTCTGTGCCAGCTCCCTGGTGAAGTTCCCTCTTTCTA
 961 GAGTCAGTAAGCAGGATTGTCATGGATGCTGCCAGGAAGTGCCTGGTAAGGAGGTGCATTGAGCAGGGGAGTGCTACAGG
1041 ACAGCCACCCTGGGCTGGCAGGGACAAGGATGTTGATGGGCTAAACCAACAGCAAGTGATTTCAACCAGGACCATGAAGG
1121 AGAGGAAGGATTCTGCTGGAAGGAGATGGCAGGACAGGGGTGGTTGGAGAAGTGGAGGCAAACAGCTGGAATGGAGGTGG
1201 GTGGGTGTTTAATTTCAGCTGCAGAGGGTGTTGTGAGGAAGCTGGAAAGGAAGGTTGGATTAGAGAAGCCTCGAGCTCCA
1281 GGTAAGCGATTTGGACATGCCCACCTTTCAAGAGGGGCTGCAGGCACCCACAGGCACAAGCTGAAGGCAGCAGCTTGGCT
1361 GGCTTAATACTGAGCAGGTGGTGGGGTAAATGCCTGCCCCCCTCCCTCTGGCCTCTGGGCCCTTTGCAGTAATCACCCAG
1441 GGTCTGGTAAAGCCACTGAGAGCCCTACTGGCACCTCAGAATCACAGTGTTATTGATCAGGGATGTGAGGCTGCTGTTGG
1521 GGGTTGGGGGAGGCAAATGGGCAGGCAGTTTTGAGAAGAACCTTCTAATAAGAAATGTGAGGGAGGTTACAGCAGTGTGT
1601 GAGAAAGACCAGGAAGAAGGAGACAAGTTTGGGGGCTGCTTCCCCTAATGGGATGATGCAATCTGGGCTCATGCTGCCAA
1681 CTAATTCTTCCACATGAAAAAAAAAAGTTTTTTGGCGGGCACGGTGGTTCACACCTGTAATCCCAGCACTTTGGGAGGCT
1761 GAGGTAGGTGGATGGCCTGAGGCCAGGAGTTTGAGACCAGCCTGGCCAACATGGTGAAACCTCATC
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' ucGACAAGGACGACUu 5'
            ||   |||||||| 
Target 5' gcCTAGACCTGCTGAt 3'
444 - 459 146.00 -13.30
2
miRNA  3' ucgaCAAGGACGACUu 5'
              | |:||||||: 
Target 5' gaagGATTCTGCTGGa 3'
1125 - 1140 132.00 -12.50
3
miRNA  3' ucgACAAGGACGACuu 5'
             ||   ||||||  
Target 5' atgTGAGGCTGCTGtt 3'
292 - 307 121.00 -9.30
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30507764 13 COSMIC
COSN30480781 25 COSMIC
COSN30458091 26 COSMIC
COSN30477482 28 COSMIC
COSN30491361 28 COSMIC
COSN31495084 103 COSMIC
COSN30583923 138 COSMIC
COSN31523048 151 COSMIC
COSN1312613 273 COSMIC
COSN28738887 306 COSMIC
COSN25298965 314 COSMIC
COSN31552523 459 COSMIC
COSN31962542 483 COSMIC
COSN30541469 509 COSMIC
COSN26676967 536 COSMIC
COSN5598075 636 COSMIC
COSN14769309 682 COSMIC
COSN7923658 683 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1487347705 2 dbSNP
rs1445986077 3 dbSNP
rs1371091372 8 dbSNP
rs11545868 12 dbSNP
rs367659530 13 dbSNP
rs771557662 20 dbSNP
rs1402973401 21 dbSNP
rs372205411 23 dbSNP
rs1040110625 24 dbSNP
rs760181009 26 dbSNP
rs376717230 28 dbSNP
rs1185064239 31 dbSNP
rs776052110 31 dbSNP
rs1358136327 32 dbSNP
rs773398674 38 dbSNP
rs1236421470 43 dbSNP
rs200110645 45 dbSNP
rs766890084 50 dbSNP
rs1448717960 56 dbSNP
rs1054820378 58 dbSNP
rs921210022 59 dbSNP
rs1317355964 62 dbSNP
rs1360422325 62 dbSNP
rs953924191 64 dbSNP
rs145395803 65 dbSNP
rs893034886 66 dbSNP
rs546091419 70 dbSNP
rs1376450005 71 dbSNP
rs1207919931 87 dbSNP
rs1425624362 89 dbSNP
rs1413795742 98 dbSNP
rs1165040462 101 dbSNP
rs1011355438 103 dbSNP
rs1403271065 113 dbSNP
rs1293058819 114 dbSNP
rs912390027 114 dbSNP
rs1186641827 116 dbSNP
rs747432853 120 dbSNP
rs1476351725 132 dbSNP
rs1023606323 137 dbSNP
rs564744757 141 dbSNP
rs1490433742 149 dbSNP
rs1293714029 163 dbSNP
rs924987872 168 dbSNP
rs762820519 176 dbSNP
rs1321390860 178 dbSNP
rs1273798975 182 dbSNP
rs1216458224 185 dbSNP
rs781524933 195 dbSNP
rs1003585291 196 dbSNP
rs894771691 201 dbSNP
rs1013115778 209 dbSNP
rs368292381 210 dbSNP
rs962219070 216 dbSNP
rs145382488 217 dbSNP
rs1465362292 232 dbSNP
rs191767305 235 dbSNP
rs4380682 236 dbSNP
rs1170518561 244 dbSNP
rs995529509 250 dbSNP
rs1420844229 265 dbSNP
rs1169826436 272 dbSNP
rs1480750465 276 dbSNP
rs1263608741 283 dbSNP
rs1478705789 292 dbSNP
rs1184597860 300 dbSNP
rs1233606049 304 dbSNP
rs9232 306 dbSNP
rs1028324430 308 dbSNP
rs950215356 308 dbSNP
rs1257526716 309 dbSNP
rs1224641729 310 dbSNP
rs1326335234 312 dbSNP
rs1299641064 313 dbSNP
rs1374530182 314 dbSNP
rs980125126 314 dbSNP
rs79649212 315 dbSNP
rs1330141730 316 dbSNP
rs533003648 319 dbSNP
rs910223586 320 dbSNP
rs927304008 321 dbSNP
rs941580928 328 dbSNP
rs201626026 336 dbSNP
rs373391043 350 dbSNP
rs966919152 351 dbSNP
rs1180688944 355 dbSNP
rs1456649597 357 dbSNP
rs1237609836 360 dbSNP
rs1204464047 365 dbSNP
rs1463039625 367 dbSNP
rs551178489 369 dbSNP
rs1341486069 370 dbSNP
rs1402192223 382 dbSNP
rs944322223 384 dbSNP
rs1040184353 385 dbSNP
rs1309636047 390 dbSNP
rs924356422 391 dbSNP
rs934513391 395 dbSNP
rs371630888 396 dbSNP
rs1361799026 397 dbSNP
rs925048976 401 dbSNP
rs936432295 409 dbSNP
rs1300968597 417 dbSNP
rs1054282590 419 dbSNP
rs1345540819 429 dbSNP
rs1160280380 430 dbSNP
rs1438064218 432 dbSNP
rs1379981868 435 dbSNP
rs1220318971 437 dbSNP
rs892933161 439 dbSNP
rs1012855324 452 dbSNP
rs916215097 458 dbSNP
rs1044252403 459 dbSNP
rs1262857238 470 dbSNP
rs1214976702 477 dbSNP
rs8562 481 dbSNP
rs1284778074 492 dbSNP
rs907382019 499 dbSNP
rs1341687149 508 dbSNP
rs1345886356 528 dbSNP
rs1310015789 532 dbSNP
rs1210407733 543 dbSNP
rs182626237 544 dbSNP
rs1417570877 553 dbSNP
rs1164411494 562 dbSNP
rs1459663912 565 dbSNP
rs1003491696 577 dbSNP
rs1187009870 578 dbSNP
rs1035105959 585 dbSNP
rs1213319087 594 dbSNP
rs897888893 597 dbSNP
rs775517714 600 dbSNP
rs1241313403 601 dbSNP
rs1270079251 603 dbSNP
rs994099842 604 dbSNP
rs1210040687 605 dbSNP
rs1263164303 606 dbSNP
rs1243507110 607 dbSNP
rs570898737 610 dbSNP
rs780893578 612 dbSNP
rs1307585532 620 dbSNP
rs1279944076 622 dbSNP
rs1049880 626 dbSNP
rs755669608 626 dbSNP
rs1339546975 629 dbSNP
rs995581699 634 dbSNP
rs778920971 635 dbSNP
rs1028334434 659 dbSNP
rs539931875 663 dbSNP
rs986391325 667 dbSNP
rs548882206 676 dbSNP
rs1462498897 679 dbSNP
rs1008164471 680 dbSNP
rs1019980557 681 dbSNP
rs1169101904 681 dbSNP
rs370038670 681 dbSNP
rs6634 682 dbSNP
rs1453311594 683 dbSNP
rs1017864839 693 dbSNP
rs749412028 699 dbSNP
rs975728791 707 dbSNP
rs1259460421 709 dbSNP
rs1158756408 710 dbSNP
rs1216702045 717 dbSNP
rs1317264982 719 dbSNP
rs1362010033 720 dbSNP
rs34067314 725 dbSNP
rs1275204258 729 dbSNP
rs774046123 730 dbSNP
rs1316595305 734 dbSNP
rs1323091184 739 dbSNP
rs535485678 748 dbSNP
rs1392205172 751 dbSNP
rs368996942 764 dbSNP
rs1345036339 767 dbSNP
rs990491640 775 dbSNP
rs1329439090 790 dbSNP
rs1465557855 793 dbSNP
rs916267425 796 dbSNP
rs1174843142 813 dbSNP
rs934442144 826 dbSNP
rs768582031 832 dbSNP
rs773243376 838 dbSNP
rs1197664905 845 dbSNP
rs760670960 852 dbSNP
rs1239437284 854 dbSNP
rs766332109 860 dbSNP
rs187552356 865 dbSNP
rs554096839 877 dbSNP
rs1456939216 882 dbSNP
rs1279155808 887 dbSNP
rs1202133216 889 dbSNP
rs1044325364 897 dbSNP
rs940282282 900 dbSNP
rs1274077167 913 dbSNP
rs1369474732 916 dbSNP
rs1233601578 917 dbSNP
rs1379477595 924 dbSNP
rs1307162824 925 dbSNP
rs907126060 926 dbSNP
rs939376210 932 dbSNP
rs1356045319 936 dbSNP
rs1413293341 943 dbSNP
rs1401921352 947 dbSNP
rs749263004 952 dbSNP
rs931385615 955 dbSNP
rs1049814739 962 dbSNP
rs572342036 964 dbSNP
rs1452015473 970 dbSNP
rs1438495475 979 dbSNP
rs539972585 981 dbSNP
rs192798052 982 dbSNP
rs897789548 984 dbSNP
rs1277647589 987 dbSNP
rs1008257825 992 dbSNP
rs1019611523 995 dbSNP
rs902463246 1002 dbSNP
rs999416255 1003 dbSNP
rs148799998 1007 dbSNP
rs1286080862 1009 dbSNP
rs776559888 1019 dbSNP
rs957843417 1028 dbSNP
rs1028121284 1033 dbSNP
rs887987091 1039 dbSNP
rs1007731639 1056 dbSNP
rs1421831229 1059 dbSNP
rs970432671 1062 dbSNP
rs1017895883 1070 dbSNP
rs759333945 1075 dbSNP
rs1418760360 1077 dbSNP
rs1236559716 1081 dbSNP
rs966271199 1086 dbSNP
rs976303364 1088 dbSNP
rs907525826 1091 dbSNP
rs576526297 1093 dbSNP
rs1236774114 1109 dbSNP
rs766994513 1114 dbSNP
rs1489126072 1115 dbSNP
rs955859973 1126 dbSNP
rs1260794889 1142 dbSNP
rs1216140803 1151 dbSNP
rs114995128 1156 dbSNP
rs920107305 1156 dbSNP
rs185544483 1157 dbSNP
rs34996623 1157 dbSNP
rs1279343129 1166 dbSNP
rs1366186565 1168 dbSNP
rs1402417565 1179 dbSNP
rs540679136 1185 dbSNP
rs189068235 1190 dbSNP
rs752242248 1196 dbSNP
rs532786144 1201 dbSNP
rs1049906261 1208 dbSNP
rs551482669 1213 dbSNP
rs1350166575 1217 dbSNP
rs115437694 1219 dbSNP
rs1437475236 1222 dbSNP
rs944098251 1231 dbSNP
rs530640350 1241 dbSNP
rs1041452448 1247 dbSNP
rs902473929 1254 dbSNP
rs1171241861 1255 dbSNP
rs192004391 1257 dbSNP
rs1192761491 1260 dbSNP
rs567234361 1273 dbSNP
rs757955556 1274 dbSNP
rs1032231737 1276 dbSNP
rs778734261 1276 dbSNP
rs184604089 1282 dbSNP
rs1220966376 1286 dbSNP
rs867322526 1288 dbSNP
rs546577239 1310 dbSNP
rs1036884072 1313 dbSNP
rs1220118028 1330 dbSNP
rs566096766 1331 dbSNP
rs1370185489 1334 dbSNP
rs1229768939 1337 dbSNP
rs897836239 1363 dbSNP
rs1433877788 1365 dbSNP
rs1393068840 1377 dbSNP
rs1003258373 1381 dbSNP
rs1015005185 1395 dbSNP
rs1333985713 1397 dbSNP
rs1199265844 1401 dbSNP
rs961709943 1402 dbSNP
rs142385964 1403 dbSNP
rs1049187932 1406 dbSNP
rs887843218 1407 dbSNP
rs1007760955 1409 dbSNP
rs151305914 1419 dbSNP
rs1238860345 1422 dbSNP
rs1200667152 1429 dbSNP
rs1456509929 1433 dbSNP
rs138486651 1440 dbSNP
rs764790858 1440 dbSNP
rs1473585043 1443 dbSNP
rs1314259237 1452 dbSNP
rs1299707467 1454 dbSNP
rs901989479 1456 dbSNP
rs781613034 1476 dbSNP
rs997770417 1478 dbSNP
rs1167469662 1494 dbSNP
rs1416235717 1503 dbSNP
rs1448281457 1515 dbSNP
rs1374026446 1519 dbSNP
rs1461367536 1526 dbSNP
rs911361235 1526 dbSNP
rs944124865 1533 dbSNP
rs1172080490 1534 dbSNP
rs188574549 1540 dbSNP
rs1041112949 1542 dbSNP
rs1398688947 1549 dbSNP
rs1408238894 1562 dbSNP
rs955765497 1562 dbSNP
rs1249939717 1563 dbSNP
rs1182929349 1568 dbSNP
rs537643477 1570 dbSNP
rs935375038 1571 dbSNP
rs746245198 1573 dbSNP
rs1354888443 1593 dbSNP
rs555955168 1595 dbSNP
rs140678683 1604 dbSNP
rs979790592 1605 dbSNP
rs375175786 1613 dbSNP
rs1305719096 1614 dbSNP
rs928487493 1620 dbSNP
rs1044884052 1627 dbSNP
rs1381321735 1628 dbSNP
rs1053254639 1629 dbSNP
rs756425609 1630 dbSNP
rs959824873 1632 dbSNP
rs972711613 1635 dbSNP
rs144657555 1636 dbSNP
rs1418154512 1637 dbSNP
rs1219139766 1647 dbSNP
rs1259959035 1651 dbSNP
rs559773867 1656 dbSNP
rs929349389 1662 dbSNP
rs761126044 1664 dbSNP
rs1426065741 1668 dbSNP
rs1254621695 1669 dbSNP
rs909187318 1672 dbSNP
rs1488800772 1673 dbSNP
rs943452273 1681 dbSNP
rs764462207 1684 dbSNP
rs1351135889 1685 dbSNP
rs35378020 1688 dbSNP
rs1185429842 1694 dbSNP
rs1491240748 1695 dbSNP
rs1491247880 1696 dbSNP
rs1232625574 1697 dbSNP
rs1244806175 1697 dbSNP
rs1340873348 1697 dbSNP
rs397811744 1697 dbSNP
rs398084681 1697 dbSNP
rs60631760 1697 dbSNP
rs962085737 1704 dbSNP
rs199588146 1708 dbSNP
rs28571792 1709 dbSNP
rs1398381485 1711 dbSNP
rs1039099787 1717 dbSNP
rs1366831757 1722 dbSNP
rs181189763 1722 dbSNP
rs997675940 1723 dbSNP
rs1167339912 1724 dbSNP
rs1403084959 1731 dbSNP
rs1436801247 1732 dbSNP
rs1053410801 1734 dbSNP
rs1192021289 1737 dbSNP
rs1311340180 1742 dbSNP
rs952949678 1743 dbSNP
rs1210094949 1760 dbSNP
rs1489146984 1782 dbSNP
rs892024517 1802 dbSNP
rs540489526 1811 dbSNP
rs985673082 1814 dbSNP
rs563047554 1826 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HeLa
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 Chi_ControlA_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell Control A ...

- Chi SW; Zang JB; Mele A; Darnell RB, 2009, Nature.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' ucgacaaGGACGACUu 5'
                 |||||||| 
Target 5' ---uagaCCUGCUGAu 3'
1 - 13
Article - Chi SW; Zang JB; Mele A; Darnell RB
- Nature, 2009
MicroRNAs (miRNAs) have critical roles in the regulation of gene expression; however, as miRNA activity requires base pairing with only 6-8 nucleotides of messenger RNA, predicting target mRNAs is a major challenge. Recently, high-throughput sequencing of RNAs isolated by crosslinking immunoprecipitation (HITS-CLIP) has identified functional protein-RNA interaction sites. Here we use HITS-CLIP to covalently crosslink native argonaute (Ago, also called Eif2c) protein-RNA complexes in mouse brain. This produced two simultaneous data sets-Ago-miRNA and Ago-mRNA binding sites-that were combined with bioinformatic analysis to identify interaction sites between miRNA and target mRNA. We validated genome-wide interaction maps for miR-124, and generated additional maps for the 20 most abundant miRNAs present in P13 mouse brain. Ago HITS-CLIP provides a general platform for exploring the specificity and range of miRNA action in vivo, and identifies precise sequences for targeting clinically relevant miRNA-mRNA interactions.
LinkOut: [PMID: 19536157]
CLIP-seq Support 1 for dataset GSM4903825
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / PID14_NS
Location of target site NM_017510 | 3UTR | ACUGUUCUCUCUUUCAGCCUAGACCUGCUGAUCCAGGGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161237
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4903826
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / PID21_NS
Location of target site NM_017510 | 3UTR | AGACCUGCUGAUCCAGGGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161237
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4903833
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_a
Location of target site NM_017510 | 3UTR | CCACAGGCACAAGCUGAAGGCAGCAGCUUGGCUAAUACUGAGCAGGUAGUGGGGCAAAUUCCUGCCCUCUCUCUCUGGCCUCUGGGCCGUUUGGUAGUAAUCACCCAAGGGCUGGUAAAGCCCCUCCUCUUGGCACCUCAGAAUCACAGUGUUACUGAUCAGGGAUGUGAGGCUGCUGUUGGGGGUGGGGGGAGGGGAAUGGGCAGGCAAGCCAGUCUUCUGUCUUCCUUUGCUAACUUAGGGUUUUGAGCAGGUUGGGGUAUGGUGCCUGUCAUACCCACCUGCCACCCUGGGAACCUCACUGUUCUCUCUUUCAGCCUAGACCUGCUGAUCCAGGGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4903834
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_b
Location of target site NM_017510 | 3UTR | ACUGAGCAGGUAGUGGGGCAAAUUCCUGCCCUCUCUCUCUGGCCUCUGGGCCGUUUGGUAGUAAUCACCCAAGGGCUGGUAAAGCCCCUCCUCUUGGCACCUCAGAAUCACAGUGUUACUGAUCAGGGAUGUGAGGCUGCUGUUGGGGGUGGGGGGAGGGGAAUGGGCAGGCAAGCCAGUCUUCUGUCUUCCUUUGCUAACUUAGGGUUUUGAGCAGGUUGGGGUAUGGUGCCUGUCAUACCCACCUGCCACCCUGGGAACCUCACUGUUCUCUCUUUCAGCCUAGACCUGCUGAUCCAGGGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM4903835
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_c
Location of target site NM_017510 | 3UTR | CAGCUUGGCUAAUACUGAGCAGGUAGUGGGGCAAAUUCCUGCCCUCUCUCUCUGGCCUCUGGGCCGUUUGGUAGUAAUCACCCAAGGGCUGGUAAAGCCCCUCCUCUUGGCACCUCAGAAUCACAGUGUUACUGAUCAGGGAUGUGAGGCUGCUGUUGGGGGUGGGGGGAGGGGAAUGGGCAGGCAAGCCAGUCUUCUGUCUUCCUUUGCUAACUUAGGGUUUUGAGCAGGUUGGGGUAUGGUGCCUGUCAUACCCACCUGCCACCCUGGGAACCUCACUGUUCUCUCUUUCAGCCUAGACCUGCUGAUCCAGGGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM4903836
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_a
Location of target site NM_017510 | 3UTR | CUCUGGCCUCUGGGCCGUUUGGUAGUAAUCACCCAAGGGCUGGUAAAGCCCCUCCUCUUGGCACCUCAGAAUCACAGUGUUACUGAUCAGGGAUGUGAGGCUGCUGUUGGGGGUGGGGGGAGGGGAAUGGGCAGGCAAGCCAGUCUUCUGUCUUCCUUUGCUAACUUAGGGUUUUGAGCAGGUUGGGGUAUGGUGCCUGUCAUACCCACCUGCCACCCUGGGAACCUCACUGUUCUCUCUUUCAGCCUAGACCUGCUGAUCCAGGGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM4903837
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_b
Location of target site NM_017510 | 3UTR | UCCUCUUGGCACCUCAGAAUCACAGUGUUACUGAUCAGGGAUGUGAGGCUGCUGUUGGGGGUGGGGGGAGGGGAAUGGGCAGGCAAGCCAGUCUUCUGUCUUCCUUUGCUAACUUAGGGUUUUGAGCAGGUUGGGGUAUGGUGCCUGUCAUACCCACCUGCCACCCUGGGAACCUCACUGUUCUCUCUUUCAGCCUAGACCUGCUGAUCCAGGGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 8 for dataset GSM4903838
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_c
Location of target site NM_017510 | 3UTR | AGGUAGUGGGGCAAAUUCCUGCCCUCUCUCUCUGGCCUCUGGGCCGUUUGGUAGUAAUCACCCAAGGGCUGGUAAAGCCCCUCCUCUUGGCACCUCAGAAUCACAGUGUUACUGAUCAGGGAUGUGAGGCUGCUGUUGGGGGUGGGGGGAGGGGAAUGGGCAGGCAAGCCAGUCUUCUGUCUUCCUUUGCUAACUUAGGGUUUUGAGCAGGUUGGGGUAUGGUGCCUGUCAUACCCACCUGCCACCCUGGGAACCUCACUGUUCUCUCUUUCAGCCUAGACCUGCUGAUCCAGGGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 9 for dataset Chi_ControlA_2A8_130_50
Method / RBP HITS-CLIP / AGO
Cell line / Condition HeLa / HeLa cell Control A
Location of target site ENST00000332598.6 | 3UTR | UAGACCUGCUGAUCCAGGGUGUGUGUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 19536157 / Chi_HITSCLIP
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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