pre-miRNA Information
pre-miRNA hsa-mir-3678   
Genomic Coordinates chr17: 75406069 - 75406162
Description Homo sapiens miR-3678 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3678-3p
Sequence 69| CUGCAGAGUUUGUACGGACCGG |90
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs988363493 1 dbSNP
rs753118178 5 dbSNP
rs1424776090 14 dbSNP
rs1475188526 15 dbSNP
rs1163369708 17 dbSNP
rs1174219930 19 dbSNP
rs915488824 20 dbSNP
rs1273558782 21 dbSNP
rs755095016 22 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol RAB1A   
Synonyms RAB1, YPT1
Description RAB1A, member RAS oncogene family
Transcript NM_004161   
Other Transcripts NM_015543   
Expression
Putative miRNA Targets on RAB1A
3'UTR of RAB1A
(miRNA target sites are highlighted)
>RAB1A|NM_004161|3'UTR
   1 AATTTGCCTCCATCCTTTTCTCACAGCAATGAATTTGCAATCTGAACCCAAGTGAAAAAACAAAATTGCCTGAATTGTAC
  81 TGTATGTAGCTGCACTACAACAGATTCTTACCGTCTCCACAAAGGTCAGAGATTGTAAATGGTCAATACTGACTTTTTTT
 161 TTATTCCCTTGACTCAAGACAGCTAACTTCATTTTCAGAACTGTTTTAAACCTTTGTGTGCTGGTTTATAAAATAATGTG
 241 TGTAATCCTTGTTGCTTTCCTGATACCAGACTGTTTCCCGTGGTTGGTTAGAATATATTTTGTTTTGATGTTTATATTGG
 321 CATGTTTAGATGTCAGGTTTAGTCTTCTGAAGATGAAGTTCAGCCATTTTGTATCAAACAGCACAAGCAGTGTCTGTCAC
 401 TTTCCATGCATAAAGTTTAGTGAGATGTTATATGTAAGATCTGATTTGCTAGTTCTTCCTTGTAGAGTTATAAATGGAAA
 481 GATTACACTATCTGATTAATAGTTTCTTCATACTCTGCATATAATTTGTGGCTGCAGAATATTGTAATTTGTTGCACACT
 561 ATGTAACAAAACAACTGAAGATATGTTTAATAAATATTGTACTTATTGGAAGTAATATCAAACTGTATGGTGATAAGTAT
 641 TGTTTTGATTCTTATGGTTAAAGGGAAATAGAGCCTTGCATTATATTCAACACAGCCATTTGTGTGTGCACAATGCAAAC
 721 TAAGGTATTCTAGACCTATCTTAGAGCAGCATCCAGTATTTGCTTTCTAGATAATATGCCCAATAACATGACCTAGAGGG
 801 GCTTCTGTGCTGTGTAGGGATTTAACCAACTTCAGTGGTTCAGGGAGCTCAAACTATATGTAAAACAAGTTTAGAATGTA
 881 TGCTATCTAGCCCGTTATCTCTGATCCTTCTCTAAAACCATTTGAAATAGCTTCATTGATCAACATTTCATAAATGCATC
 961 TGTGGTAGAGGTAGAAAGCAGCACCTTTCCTAATTGGCAAATGATCAGACTAATGTGTGCTAATGTTTTTCTTCCATGCT
1041 TTCAGTCAGATTCAACTATTTTATCCTCCACAGTTGCTTAACTTGGTGTTGGAGGAGGGTTTAAGCATTAAGATAGGAAG
1121 CAGGAAATTTGATTGCTCTAAATTTAGAAATTATATCCCTAAAAATTAAAACATGAATACTGGGTGGTAATGATAATTGA
1201 GGCAAATGTATTTATTTTGGTGACATTTTGCATATATGAAGATTTTCTGAAATAGGACCTTCAAGATCCTAGGGGGTTTT
1281 GTTTGGTTTTTAATTGTGAGGAATAAAAAATCTTCTGCCCACACTGGCATTTTAAGGTGACTGAGGTCAAACGTTGTTTC
1361 CTTAGGTTGAAATAGCAGCCAAAACATTCTTCACGCAGGGGCTTGGGATATGGCTGCTGGCAACACATTTTGTTGTGGGC
1441 TCCTTAATTTAATGATAAAATTTAAGCTAAACACAAGCCAAAAATGAATAGGTTTTTTTAATTTTTATTTTTCACTAAAC
1521 AGGCAATTGAAATACATGGTACAAAAATAAGTGGTAAGATAATTGTAAAATGAAATGGACAGAATATTCAATTTTCCATC
1601 TATGAAAATTTCACAATAAAAATCATAGTTTACTTTGTAAAAAA
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' ggcCAGGCAUGUUUGAGACGUc 5'
             ||:: | || |||||||| 
Target 5' ataGTTTCTTCATACTCTGCAt 3'
499 - 520 163.00 -12.70
2
miRNA  3' ggccAGGCAUGUUUGAGACGUc 5'
              |: ||: | |:|:|||| 
Target 5' tattTTGGTG-ACATTTTGCAt 3'
1213 - 1233 121.00 -8.50
3
miRNA  3' ggccaggcAUGUUU---GAGACGuc 5'
                  || |||   :|||||  
Target 5' gtgaggaaTAAAAAATCTTCTGCcc 3'
1296 - 1320 114.00 -5.04
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN20074432 11 COSMIC
COSN14003094 12 COSMIC
COSN26547594 16 COSMIC
COSN30168076 131 COSMIC
COSN31518915 153 COSMIC
COSN20921966 262 COSMIC
COSN26669297 279 COSMIC
COSN6190397 680 COSMIC
COSN5508723 690 COSMIC
COSN31528285 763 COSMIC
COSN31589442 845 COSMIC
COSN28202089 1236 COSMIC
COSN31518100 1501 COSMIC
COSN31568100 1550 COSMIC
COSN26577326 1614 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1227489017 7 dbSNP
rs751426005 10 dbSNP
rs1369863651 15 dbSNP
rs763943567 18 dbSNP
rs1289725745 20 dbSNP
rs1405445822 24 dbSNP
rs759806008 25 dbSNP
rs755397579 29 dbSNP
rs1402114237 33 dbSNP
rs750059070 35 dbSNP
rs566920211 40 dbSNP
rs1159522600 43 dbSNP
rs369450925 47 dbSNP
rs1410209424 49 dbSNP
rs1358562591 52 dbSNP
rs947790261 61 dbSNP
rs1272606404 62 dbSNP
rs1465549585 75 dbSNP
rs1013327225 76 dbSNP
rs1479070092 77 dbSNP
rs917630989 82 dbSNP
rs764977210 95 dbSNP
rs1369056179 96 dbSNP
rs886880838 99 dbSNP
rs761186202 100 dbSNP
rs1443384907 107 dbSNP
rs938818436 109 dbSNP
rs1205477937 111 dbSNP
rs924919188 112 dbSNP
rs898710762 113 dbSNP
rs1313872835 117 dbSNP
rs1344645645 126 dbSNP
rs760395230 129 dbSNP
rs150872549 135 dbSNP
rs1329882642 140 dbSNP
rs1315966384 141 dbSNP
rs530260936 146 dbSNP
rs1021575731 148 dbSNP
rs1051076490 150 dbSNP
rs946118671 155 dbSNP
rs975350684 159 dbSNP
rs1256569228 162 dbSNP
rs1185657876 163 dbSNP
rs1277519006 163 dbSNP
rs964100076 166 dbSNP
rs1416552887 167 dbSNP
rs913359801 175 dbSNP
rs1361768091 187 dbSNP
rs1452584251 189 dbSNP
rs1342046796 192 dbSNP
rs1303837131 202 dbSNP
rs1331725714 213 dbSNP
rs1404755859 214 dbSNP
rs1395079391 217 dbSNP
rs987928104 221 dbSNP
rs1474346224 223 dbSNP
rs561046036 226 dbSNP
rs1020093668 228 dbSNP
rs1312746582 229 dbSNP
rs1008089773 235 dbSNP
rs886922704 244 dbSNP
rs957867128 247 dbSNP
rs925166736 248 dbSNP
rs1316604668 252 dbSNP
rs544342002 260 dbSNP
rs1256400360 263 dbSNP
rs1346801183 276 dbSNP
rs1208655759 277 dbSNP
rs760664390 279 dbSNP
rs995821367 290 dbSNP
rs1183782815 295 dbSNP
rs1024625141 297 dbSNP
rs1172162757 308 dbSNP
rs1463625462 310 dbSNP
rs898378884 313 dbSNP
rs1422058560 314 dbSNP
rs1170599244 315 dbSNP
rs1433177387 317 dbSNP
rs75669866 318 dbSNP
rs1473297326 327 dbSNP
rs15048 328 dbSNP
rs1013296486 346 dbSNP
rs1371779458 352 dbSNP
rs538067960 359 dbSNP
rs775634911 361 dbSNP
rs1185950580 373 dbSNP
rs1372648623 375 dbSNP
rs569183939 379 dbSNP
rs1442025436 381 dbSNP
rs1044752935 387 dbSNP
rs947676104 390 dbSNP
rs1303601874 391 dbSNP
rs771978220 400 dbSNP
rs1332610590 404 dbSNP
rs191115996 410 dbSNP
rs1056605960 418 dbSNP
rs1456527200 420 dbSNP
rs1257276206 430 dbSNP
rs1342838152 431 dbSNP
rs1228837049 439 dbSNP
rs1249140679 459 dbSNP
rs1358461354 461 dbSNP
rs898682013 468 dbSNP
rs770810440 481 dbSNP
rs1040332039 486 dbSNP
rs1452172912 487 dbSNP
rs938888808 488 dbSNP
rs1391138114 492 dbSNP
rs1377115715 496 dbSNP
rs1332982827 498 dbSNP
rs1354024320 498 dbSNP
rs924773827 500 dbSNP
rs1295355911 502 dbSNP
rs891397304 502 dbSNP
rs1051046187 505 dbSNP
rs1406454102 531 dbSNP
rs1302457420 532 dbSNP
rs1416638936 535 dbSNP
rs1216274671 542 dbSNP
rs1293275010 544 dbSNP
rs946087291 559 dbSNP
rs1221738594 560 dbSNP
rs1266676224 561 dbSNP
rs1212637935 563 dbSNP
rs1466890055 563 dbSNP
rs913287450 567 dbSNP
rs1472688674 568 dbSNP
rs1451657289 572 dbSNP
rs1185289779 575 dbSNP
rs1381109234 576 dbSNP
rs745699162 580 dbSNP
rs1054487105 585 dbSNP
rs977738315 587 dbSNP
rs947647748 597 dbSNP
rs1392332537 599 dbSNP
rs774675538 606 dbSNP
rs1321404987 609 dbSNP
rs1389111662 611 dbSNP
rs1432720764 613 dbSNP
rs1286887707 615 dbSNP
rs1361248966 618 dbSNP
rs565303305 621 dbSNP
rs1437847353 625 dbSNP
rs1228786888 627 dbSNP
rs925125479 630 dbSNP
rs975404401 633 dbSNP
rs1232315167 643 dbSNP
rs969329904 648 dbSNP
rs981034396 648 dbSNP
rs1214162398 651 dbSNP
rs1241866934 652 dbSNP
rs1483885463 654 dbSNP
rs771209043 655 dbSNP
rs1453225785 663 dbSNP
rs544940077 668 dbSNP
rs758933604 671 dbSNP
rs1354149603 674 dbSNP
rs987287004 680 dbSNP
rs951279994 690 dbSNP
rs1310916322 696 dbSNP
rs1025907313 700 dbSNP
rs1316012628 702 dbSNP
rs995297197 708 dbSNP
rs1237489384 711 dbSNP
rs1344346808 722 dbSNP
rs185120684 728 dbSNP
rs1448699368 736 dbSNP
rs898431234 738 dbSNP
rs1023527355 740 dbSNP
rs1375776157 741 dbSNP
rs991788234 744 dbSNP
rs1274890292 747 dbSNP
rs114374370 750 dbSNP
rs1438046979 755 dbSNP
rs7600616 763 dbSNP
rs995269200 769 dbSNP
rs1221681409 780 dbSNP
rs1284042296 783 dbSNP
rs1322182218 793 dbSNP
rs573919976 795 dbSNP
rs777915934 796 dbSNP
rs896137078 814 dbSNP
rs1213654476 821 dbSNP
rs962806145 822 dbSNP
rs762483968 823 dbSNP
rs142285918 825 dbSNP
rs1254033433 827 dbSNP
rs1417317708 834 dbSNP
rs891372138 835 dbSNP
rs182541222 836 dbSNP
rs571130525 838 dbSNP
rs1406994907 848 dbSNP
rs1160889804 850 dbSNP
rs1175275008 855 dbSNP
rs756216859 856 dbSNP
rs947535161 858 dbSNP
rs1433999450 860 dbSNP
rs1308151258 865 dbSNP
rs1336970835 871 dbSNP
rs557753719 876 dbSNP
rs1407585011 880 dbSNP
rs534357331 884 dbSNP
rs748644728 885 dbSNP
rs1244838347 886 dbSNP
rs912545635 888 dbSNP
rs936079194 891 dbSNP
rs567133381 892 dbSNP
rs374680749 893 dbSNP
rs1347843754 894 dbSNP
rs781703250 897 dbSNP
rs986784154 898 dbSNP
rs1275233776 899 dbSNP
rs1488609328 901 dbSNP
rs755301364 904 dbSNP
rs1436095343 905 dbSNP
rs1181366352 907 dbSNP
rs1247579050 918 dbSNP
rs1287887383 929 dbSNP
rs546937502 933 dbSNP
rs1195317457 946 dbSNP
rs11884205 956 dbSNP
rs973914819 957 dbSNP
rs778379087 958 dbSNP
rs1278924419 964 dbSNP
rs1398018933 968 dbSNP
rs1407785197 969 dbSNP
rs879147058 978 dbSNP
rs1220415583 983 dbSNP
rs1350162158 986 dbSNP
rs1364882142 989 dbSNP
rs917799397 992 dbSNP
rs992096131 994 dbSNP
rs1370654198 1000 dbSNP
rs1229805732 1002 dbSNP
rs1273528205 1006 dbSNP
rs1272364357 1009 dbSNP
rs1338013572 1019 dbSNP
rs1023581585 1022 dbSNP
rs1470024021 1024 dbSNP
rs1012169747 1025 dbSNP
rs1212011443 1037 dbSNP
rs1250928113 1039 dbSNP
rs929600609 1044 dbSNP
rs566816269 1054 dbSNP
rs974170034 1058 dbSNP
rs960438411 1062 dbSNP
rs1474375284 1069 dbSNP
rs1018477735 1073 dbSNP
rs985614645 1085 dbSNP
rs1035106918 1086 dbSNP
rs999164025 1087 dbSNP
rs955543354 1091 dbSNP
rs1029839301 1094 dbSNP
rs1394212609 1097 dbSNP
rs1436363015 1100 dbSNP
rs565463078 1106 dbSNP
rs902281424 1112 dbSNP
rs1227301949 1119 dbSNP
rs567529027 1124 dbSNP
rs550614244 1129 dbSNP
rs1272862881 1140 dbSNP
rs893301824 1143 dbSNP
rs1039965126 1157 dbSNP
rs756944908 1158 dbSNP
rs912772058 1163 dbSNP
rs531050039 1176 dbSNP
rs1416183269 1181 dbSNP
rs753219163 1183 dbSNP
rs1000639279 1194 dbSNP
rs1423132840 1197 dbSNP
rs1175876146 1206 dbSNP
rs1162163356 1209 dbSNP
rs1416789129 1216 dbSNP
rs1478088860 1225 dbSNP
rs929963542 1226 dbSNP
rs565269611 1229 dbSNP
rs1160693333 1232 dbSNP
rs1383202769 1234 dbSNP
rs905913280 1245 dbSNP
rs1044876768 1258 dbSNP
rs1357449163 1269 dbSNP
rs1413077068 1272 dbSNP
rs918695647 1274 dbSNP
rs36072792 1276 dbSNP
rs962577299 1277 dbSNP
rs916410755 1282 dbSNP
rs990619641 1297 dbSNP
rs1487858749 1299 dbSNP
rs960911044 1309 dbSNP
rs1204484881 1311 dbSNP
rs1258223558 1313 dbSNP
rs1034923279 1316 dbSNP
rs929860717 1317 dbSNP
rs1256156447 1322 dbSNP
rs1310138100 1330 dbSNP
rs1183470467 1352 dbSNP
rs1362432633 1353 dbSNP
rs1453407931 1354 dbSNP
rs1174645471 1355 dbSNP
rs1277295083 1365 dbSNP
rs749087321 1367 dbSNP
rs760319470 1379 dbSNP
rs1319187171 1380 dbSNP
rs966391668 1385 dbSNP
rs1022026256 1386 dbSNP
rs1010602261 1387 dbSNP
rs900225642 1389 dbSNP
rs11884049 1394 dbSNP
rs1361709331 1395 dbSNP
rs910936046 1400 dbSNP
rs1007035308 1413 dbSNP
rs1350013137 1416 dbSNP
rs1194448134 1417 dbSNP
rs891385487 1418 dbSNP
rs767595124 1427 dbSNP
rs1279016866 1432 dbSNP
rs985625202 1432 dbSNP
rs191217466 1435 dbSNP
rs1197184259 1437 dbSNP
rs929990585 1438 dbSNP
rs1418131743 1443 dbSNP
rs1194700722 1445 dbSNP
rs1357684708 1453 dbSNP
rs542949916 1462 dbSNP
rs1173500852 1466 dbSNP
rs552982555 1466 dbSNP
rs1463654761 1474 dbSNP
rs1296511292 1481 dbSNP
rs1466227289 1488 dbSNP
rs1425637449 1491 dbSNP
rs555788919 1499 dbSNP
rs1441875239 1500 dbSNP
rs11546467 1507 dbSNP
rs897153220 1512 dbSNP
rs1372848393 1513 dbSNP
rs186268150 1517 dbSNP
rs1232003306 1525 dbSNP
rs1302499087 1530 dbSNP
rs557212318 1533 dbSNP
rs1168452316 1535 dbSNP
rs1038498808 1536 dbSNP
rs1480126832 1543 dbSNP
rs543511407 1548 dbSNP
rs1427643565 1558 dbSNP
rs1255300733 1563 dbSNP
rs181533930 1567 dbSNP
rs1414237399 1569 dbSNP
rs557598369 1577 dbSNP
rs1193399472 1589 dbSNP
rs1430787742 1591 dbSNP
rs1168475053 1598 dbSNP
rs990673548 1605 dbSNP
rs1462184904 1609 dbSNP
rs956282613 1615 dbSNP
rs138999104 1616 dbSNP
rs1396411832 1617 dbSNP
rs1183453879 1620 dbSNP
rs571987447 1623 dbSNP
rs1242203669 1625 dbSNP
rs1198673502 1628 dbSNP
rs1216220076 1639 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
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 GSM545212. RNA binding protein: AGO1. Condition:Control PAR-CLIP data was present in GSM545216. RNA binding protein: AGO2. Condition:miR-124 transfection PAR-CLIP data was present in GSM545217. RNA binding protein: AGO2. Condition:miR-7 transfection ...

- Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell.

Article - Hafner M; Landthaler M; Burger L; Khorshid et al.
- Cell, 2010
RNA transcripts are subject to posttranscriptional gene regulation involving hundreds of RNA-binding proteins (RBPs) and microRNA-containing ribonucleoprotein complexes (miRNPs) expressed in a cell-type dependent fashion. We developed a cell-based crosslinking approach to determine at high resolution and transcriptome-wide the binding sites of cellular RBPs and miRNPs. The crosslinked sites are revealed by thymidine to cytidine transitions in the cDNAs prepared from immunopurified RNPs of 4-thiouridine-treated cells. We determined the binding sites and regulatory consequences for several intensely studied RBPs and miRNPs, including PUM2, QKI, IGF2BP1-3, AGO/EIF2C1-4 and TNRC6A-C. Our study revealed that these factors bind thousands of sites containing defined sequence motifs and have distinct preferences for exonic versus intronic or coding versus untranslated transcript regions. The precise mapping of binding sites across the transcriptome will be critical to the interpretation of the rapidly emerging data on genetic variation between individuals and how these variations contribute to complex genetic diseases.
LinkOut: [PMID: 20371350]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 5861.0
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 "PAR-CLIP data was present in GSM1065669. RNA binding protein: AGO1. Condition:4-thiouridine ...

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

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]
CLIP-seq Support 1 for dataset GSM4903835
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_c
Location of target site NM_015543 | 3UTR | UACUCUGCAUAUAAUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM545212
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / Control
Location of target site ENST00000409892.1 | 3UTR | UUUCUUCAUACUCUGCAUAUAAUUUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM545216
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / miR-124 transfection
Location of target site ENST00000409892.1 | 3UTR | AUUAAUAGUUUCUUCAUACUCUGCAUAUAAUUUGUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM545217
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / miR-7 transfection
Location of target site ENST00000409892.1 | 3UTR | UUUCUUCAUACUCUGCAUAUAAUUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM1065668
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / 4-thiouridine, ML_MM_7
Location of target site ENST00000409892.1 | 3UTR | UUUCUUCAUACUCUGCAUAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM1065669
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / 4-thiouridine, ML_MM_8
Location of target site ENST00000409892.1 | 3UTR | UUUCUUCAUACUCUGCAUAUAAUUUG
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
LUSC 0.424 0.29 0.200 0.4 4 Click to see details
LIHC 0.21 0.29 0.300 0.22 9 Click to see details
HNSC 0.113 0.37 0.318 0.17 11 Click to see details
HNSC 0.113 0.37 0.318 0.17 11 Click to see details
HNSC 0.113 0.37 0.318 0.17 11 Click to see details
HNSC 0.113 0.37 0.318 0.17 11 Click to see details
HNSC 0.113 0.37 0.318 0.17 11 Click to see details
HNSC 0.113 0.37 0.318 0.17 11 Click to see details
HNSC 0.113 0.37 0.318 0.17 11 Click to see details
HNSC 0.113 0.37 0.318 0.17 11 Click to see details
HNSC 0.113 0.37 0.318 0.17 11 Click to see details
HNSC 0.113 0.37 0.318 0.17 11 Click to see details
86 hsa-miR-3678-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT074327 TNRC6A trinucleotide repeat containing 6A 2 10
MIRT107705 CLTA clathrin light chain A 2 2
MIRT114113 AGO1 argonaute 1, RISC catalytic component 2 2
MIRT155293 IFNAR2 interferon alpha and beta receptor subunit 2 2 4
MIRT159171 NRBP1 nuclear receptor binding protein 1 2 2
MIRT185795 ZNF678 zinc finger protein 678 2 2
MIRT282672 SYNM synemin 2 2
MIRT294386 ZNF264 zinc finger protein 264 2 2
MIRT295818 CHMP4B charged multivesicular body protein 4B 2 2
MIRT332777 CAPRIN1 cell cycle associated protein 1 2 4
MIRT334112 PPP6R3 protein phosphatase 6 regulatory subunit 3 2 2
MIRT340971 IPO5 importin 5 2 2
MIRT354679 CDV3 CDV3 homolog 2 2
MIRT366662 PLP2 proteolipid protein 2 2 2
MIRT404272 PLEKHA8 pleckstrin homology domain containing A8 2 2
MIRT447536 RNF165 ring finger protein 165 2 2
MIRT449139 UQCRB ubiquinol-cytochrome c reductase binding protein 2 2
MIRT451301 LGALS3BP galectin 3 binding protein 2 2
MIRT451488 FOPNL FGFR1OP N-terminal like 2 2
MIRT455198 GNL1 G protein nucleolar 1 (putative) 2 2
MIRT459215 MRPS21 mitochondrial ribosomal protein S21 2 2
MIRT461764 MPDU1 mannose-P-dolichol utilization defect 1 2 2
MIRT463273 ZFX zinc finger protein, X-linked 2 2
MIRT464862 UBB ubiquitin B 2 8
MIRT464950 TWIST1 twist family bHLH transcription factor 1 2 2
MIRT467378 SON SON DNA binding protein 2 4
MIRT469282 RHOA ras homolog family member A 2 2
MIRT470293 PPTC7 PTC7 protein phosphatase homolog 2 2
MIRT470639 POM121C POM121 transmembrane nucleoporin C 2 2
MIRT477163 FABP3 fatty acid binding protein 3 2 2
MIRT477686 EFHD2 EF-hand domain family member D2 2 2
MIRT479725 CCNF cyclin F 2 2
MIRT481726 APH1A aph-1 homolog A, gamma-secretase subunit 2 2
MIRT485673 CCDC64 BICD family like cargo adaptor 1 2 2
MIRT498280 PADI2 peptidyl arginine deiminase 2 2 2
MIRT499921 GPX8 glutathione peroxidase 8 (putative) 2 2
MIRT503616 SLC25A36 solute carrier family 25 member 36 2 4
MIRT506927 IGDCC4 immunoglobulin superfamily DCC subclass member 4 2 6
MIRT507348 FAM129A family with sequence similarity 129 member A 2 6
MIRT508265 DYNLL2 dynein light chain LC8-type 2 2 4
MIRT508284 YES1 YES proto-oncogene 1, Src family tyrosine kinase 2 4
MIRT509353 COPS8 COP9 signalosome subunit 8 2 2
MIRT510892 RAB1A RAB1A, member RAS oncogene family 2 4
MIRT511882 GAS1 growth arrest specific 1 2 6
MIRT511990 E2F1 E2F transcription factor 1 2 4
MIRT512239 ARPP19 cAMP regulated phosphoprotein 19 2 4
MIRT512392 BUB1 BUB1 mitotic checkpoint serine/threonine kinase 2 4
MIRT514086 EPS15L1 epidermal growth factor receptor pathway substrate 15 like 1 2 6
MIRT514358 UBBP4 ubiquitin B pseudogene 4 2 6
MIRT523149 HNRNPU heterogeneous nuclear ribonucleoprotein U 2 2
MIRT525511 FSIP2 fibrous sheath interacting protein 2 2 2
MIRT526333 SH3TC2 SH3 domain and tetratricopeptide repeats 2 2 2
MIRT529962 ZNF71 zinc finger protein 71 2 2
MIRT530337 GABRB3 gamma-aminobutyric acid type A receptor beta3 subunit 2 2
MIRT530884 PHOX2A paired like homeobox 2a 2 2
MIRT533097 YOD1 YOD1 deubiquitinase 2 2
MIRT533250 VCAM1 vascular cell adhesion molecule 1 2 2
MIRT534786 RAB8B RAB8B, member RAS oncogene family 2 2
MIRT537917 DSTYK dual serine/threonine and tyrosine protein kinase 2 2
MIRT547799 JARID2 jumonji and AT-rich interaction domain containing 2 2 2
MIRT548714 CRK CRK proto-oncogene, adaptor protein 2 2
MIRT555509 PMEPA1 prostate transmembrane protein, androgen induced 1 2 2
MIRT555984 NFYB nuclear transcription factor Y subunit beta 2 2
MIRT557942 FAM222B family with sequence similarity 222 member B 2 2
MIRT560830 ZNF786 zinc finger protein 786 2 2
MIRT562720 ZNF714 zinc finger protein 714 2 2
MIRT565337 TMEM104 transmembrane protein 104 2 2
MIRT614453 REL REL proto-oncogene, NF-kB subunit 2 2
MIRT639474 SLC6A4 solute carrier family 6 member 4 2 2
MIRT644056 IQCE IQ motif containing E 2 2
MIRT651652 VWA1 von Willebrand factor A domain containing 1 2 2
MIRT651866 UNC119B unc-119 lipid binding chaperone B 2 2
MIRT653490 SLC43A2 solute carrier family 43 member 2 2 2
MIRT657039 KCNJ6 potassium voltage-gated channel subfamily J member 6 2 2
MIRT657985 GAN gigaxonin 2 2
MIRT672117 ATP6V0A2 ATPase H+ transporting V0 subunit a2 2 2
MIRT683583 GSTCD glutathione S-transferase C-terminal domain containing 2 2
MIRT688689 CPS1 carbamoyl-phosphate synthase 1 2 2
MIRT695375 NSA2 NSA2, ribosome biogenesis homolog 2 2
MIRT696351 EIF2S3 eukaryotic translation initiation factor 2 subunit gamma 2 2
MIRT700614 PRKAA2 protein kinase AMP-activated catalytic subunit alpha 2 2 2
MIRT703512 FKBP15 FK506 binding protein 15 2 2
MIRT705051 C5orf15 chromosome 5 open reading frame 15 2 2
MIRT705180 BTG1 BTG anti-proliferation factor 1 2 2
MIRT709409 FBXL20 F-box and leucine rich repeat protein 20 2 2
MIRT721053 DCC DCC netrin 1 receptor 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-3678-3p Platinum 23939 resistant tissue
hsa-miR-3678-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-3678-3p Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (1500 ng/ml)
hsa-miR-3678-3p Paclitaxel/Docetaxel/Vinorelbine/Doxorubicin/Etoposide resistant cell line (Bads-200)

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