miRTarBase - #MIRT556241


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pre-miRNA Information
pre-miRNA hsa-mir-3618   
Genomic Coordinates chr22: 20085746 - 20085833
Description Homo sapiens miR-3618 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3618
Sequence 52| UGUCUACAUUAAUGAAAAGAGC |73
Evidence Experimental
Experiments Illumina
Editing Events in miRNAs
Modification Type Position on miR Chromosome DNA Strand Genomic Position (hg38) List of PMIDs Variant details
A-to-I 11 22 + 20085807 27587585 MiREDiBase
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN30730356 3 COSMIC
COSN30178222 4 COSMIC
COSN26973254 21 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs12159555 4 dbSNP
rs761877586 8 dbSNP
Putative Targets

Gene Information
Gene Symbol MARCH9   
Synonyms MARCH-IX, RNF179
Description membrane associated ring-CH-type finger 9
Transcript NM_138396   
Expression
Putative miRNA Targets on MARCH9
3'UTR of MARCH9
(miRNA target sites are highlighted)		 
>MARCH9|NM_138396|3'UTR
   1 ACTGGACTCCAGGAGCAGGGATCTTGAGTCAATGCATCAGTCAGAGAAGAACTCTCATGGCTGCTGGAGGTACCAGCTGG
  81 ACAAGGTGTTTGGGGCATGCTGCCCCCGTCACCGAGGATCTGTGTGGGTAGCCTCAAGCTGGAGACATTGTCTGGCCTCA
 161 CTGCCCACTGGGTAGAGACACCTGGATGACATTTCAGTACCCGCTGGCAGCTCCTCCCACTCATCCAGAGACGGCCGGTG
 241 GGCAGGCGGGGAGAGCAGCTTTCCTTCCCTGGAGAGAACCGTCTTTACCTCAGCTCCTAGGGCCTCCAGCCCCCCAGCTC
 321 CACCACGGTGACTTGGTGAAGGGGGACCAATGCCAGAAGAAAGGGGCTGTAGACCCCTATTCCCCACCCCATGGCCACAG
 401 GGCATCTGGCAATAAGACTAGTATACATTGACCTCCCGTTCCCTGCATGAGGGCGGGGAGTTCCCCCTGCTCCATCCCCC
 481 ATTGCATGGGGGAAGGGCATAAAGAATCATTTATATGCACGTGGAGACTCCTTTCTCATCTGGGGCTTTTCTGGAGGGTT
 561 GGGAGATGTGGGGAGGTTTCTCTGCACAGGTTGCAAATCCCAAATGCAGCAGTGGGTTCTGAGTTGTAGGTGTGACTCCC
 641 ACTTGCTGGTGAATAATTCATGTTGGCTGCTAGGTGGCAGCACTCCGAGGTATCTAAAGGGTAGACCTGGACCTGCCACC
 721 TATGAGTTGTGTGATATAGAAAAAAATCTCTTAGCTCTGGTTTTCCTGTCTACTTCATAGGGTTGGAATAAGGATAAATG
 801 AGGGACAGGTTGGATGCCGTTGCAGAGAAAATCAGCAATGACATAAAGAGATTTCTAGAATAGTTGATGGTCCATTTATT
 881 TCAAATAGTAGCTGGTGTAACAAATTCTAAAATGTGTTTTTCATCTGGAGTTGCACAGAATCATGGAATTTTGTGTTGAG
 961 TGACATAATAGGTATGGAAATATGAGGGGAAATAGACATTGCAAATGTGAAGCATGGTGGTTATTTGTTAAGAATGAGAA
1041 CTCCTCTGACTCTAAATATTTGGGCCTGTGGGCTGGGGAAGGCTGGAGCCATCTGCCTTGTTCTGGAGATCATCTGGGTT
1121 CTATCAGTCCTTCTCAAGTACTGTGCTCACCCAGAAAAGCAGTGTGAAGTGAATTTGGACTCATTTGGAGTGAGATGGAG
1201 GGAATCCCCCCACTCAGTGTTATGAGTCTCCAACCCCAGTTTAAGCTATTTCCATGGCAGTTTAGGGTCACAGGTTTGAT
1281 CCCGGTGTGCCCAGCCAGTGGTATTAATGGATGGCATTATGTTTGGAGGCAGCAGCATAGAGGACTGTTGTTTATAGAGA
1361 AAAGATTTGGGAAGGACTGTTTACAATGTGGGTCAGCCTGAAGCCTGGGCACTTTCTTCTGTGACCTTGGGGTTGTGTAT
1441 TATATGAATGATGCTGTTTTTAAGTAAACCATTCAACAGCAATTAAATAATTCCTTCATTCACGGCTAAAGTC
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' cgagaaaaguaauuACAUCUGu 5'
                        ||||||| 
Target 5' cagaagaaaggggcTGTAGACc 3'
 354 - 375 140.00 -6.40
2 
miRNA  3' cgagaaaaguaauuaCAUCUGu 5'
                         |||||| 
Target 5' cgaggtatctaaaggGTAGACc 3'
 686 - 707 120.00 -6.20
3 
miRNA  3' cgagaaAAGUAAUU-ACAUCUGu 5'
                ||| | |: |||||:: 
Target 5' agtgggTTC-TGAGTTGTAGGTg 3'
 611 - 632 115.00 -8.92
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN2525806 23 COSMIC
COSN31503582 43 COSMIC
COSN18736900 83 COSMIC
COSN24940671 125 COSMIC
COSN31557241 226 COSMIC
COSN2481264 263 COSMIC
COSN9564941 273 COSMIC
COSN7375130 723 COSMIC
COSN4730318 1504 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs779837575 3 dbSNP
rs1362502252 5 dbSNP
rs1227119899 9 dbSNP
rs747004245 11 dbSNP
rs768713045 23 dbSNP
rs1208674234 24 dbSNP
rs925901349 26 dbSNP
rs537225222 27 dbSNP
rs1486077255 28 dbSNP
rs1206604810 29 dbSNP
rs748220516 31 dbSNP
rs935915721 33 dbSNP
rs762318277 44 dbSNP
rs1381146642 45 dbSNP
rs769870101 47 dbSNP
rs376124364 48 dbSNP
rs1282207253 55 dbSNP
rs940391938 60 dbSNP
rs1355555170 61 dbSNP
rs1037229134 69 dbSNP
rs186378478 83 dbSNP
rs1455670770 85 dbSNP
rs1387956719 90 dbSNP
rs1045471853 94 dbSNP
rs1204741244 105 dbSNP
rs1252927078 108 dbSNP
rs905601350 109 dbSNP
rs1002410631 114 dbSNP
rs1204369467 117 dbSNP
rs1250403013 120 dbSNP
rs1187193777 140 dbSNP
rs1463201470 147 dbSNP
rs1266921799 149 dbSNP
rs1055279989 151 dbSNP
rs888723158 165 dbSNP
rs534740286 167 dbSNP
rs1287485699 187 dbSNP
rs1016027962 193 dbSNP
rs1365876608 198 dbSNP
rs577731247 201 dbSNP
rs1048565463 203 dbSNP
rs1432779163 204 dbSNP
rs1364636256 215 dbSNP
rs895183500 217 dbSNP
rs998231815 221 dbSNP
rs756628131 233 dbSNP
rs1164555886 234 dbSNP
rs1430846974 237 dbSNP
rs545070723 237 dbSNP
rs1187292837 238 dbSNP
rs954126921 245 dbSNP
rs11172324 248 dbSNP
rs372793276 249 dbSNP
rs1307966507 251 dbSNP
rs1489268193 254 dbSNP
rs999550514 256 dbSNP
rs1220330101 266 dbSNP
rs925796529 267 dbSNP
rs1048691 269 dbSNP
rs988723407 273 dbSNP
rs1341301890 275 dbSNP
rs542992266 281 dbSNP
rs989683761 282 dbSNP
rs367614151 284 dbSNP
rs1365543056 285 dbSNP
rs1214853504 295 dbSNP
rs981099066 297 dbSNP
rs1297201144 298 dbSNP
rs1339806596 303 dbSNP
rs921788782 310 dbSNP
rs953369387 312 dbSNP
rs1481701537 313 dbSNP
rs927050544 316 dbSNP
rs987226015 327 dbSNP
rs191637509 328 dbSNP
rs911668333 329 dbSNP
rs1429686450 331 dbSNP
rs1378665205 339 dbSNP
rs1176196744 362 dbSNP
rs1434438336 362 dbSNP
rs940338975 364 dbSNP
rs1483141977 366 dbSNP
rs971717505 375 dbSNP
rs918805085 376 dbSNP
rs3741423 380 dbSNP
rs1049161972 389 dbSNP
rs1207901223 390 dbSNP
rs138487701 396 dbSNP
rs1300676830 401 dbSNP
rs1229246103 402 dbSNP
rs1352493284 405 dbSNP
rs565447424 409 dbSNP
rs1482960899 410 dbSNP
rs112078037 418 dbSNP
rs897404130 421 dbSNP
rs750375046 422 dbSNP
rs1305160859 428 dbSNP
rs532268941 429 dbSNP
rs182952417 438 dbSNP
rs565718350 439 dbSNP
rs1375434850 445 dbSNP
rs1175015145 447 dbSNP
rs1472727675 448 dbSNP
rs1413662911 451 dbSNP
rs187600368 455 dbSNP
rs1031014138 456 dbSNP
rs548213907 458 dbSNP
rs746245662 468 dbSNP
rs1256582887 475 dbSNP
rs1202176721 476 dbSNP
rs1006948781 477 dbSNP
rs756061543 479 dbSNP
rs1209379938 481 dbSNP
rs957190921 483 dbSNP
rs989144855 504 dbSNP
rs780148341 505 dbSNP
rs141877383 510 dbSNP
rs953222038 511 dbSNP
rs536913311 521 dbSNP
rs753629578 522 dbSNP
rs1018622730 529 dbSNP
rs1402062821 531 dbSNP
rs558738870 536 dbSNP
rs1335535542 538 dbSNP
rs570263865 541 dbSNP
rs1457348057 546 dbSNP
rs1303936041 550 dbSNP
rs538756311 554 dbSNP
rs1390182269 562 dbSNP
rs971283378 571 dbSNP
rs981131759 574 dbSNP
rs926915802 584 dbSNP
rs754751353 588 dbSNP
rs73338247 589 dbSNP
rs1422007452 593 dbSNP
rs1242405467 607 dbSNP
rs984516977 608 dbSNP
rs1217465314 614 dbSNP
rs777318885 621 dbSNP
rs1466347877 631 dbSNP
rs374113522 639 dbSNP
rs368055074 640 dbSNP
rs542987329 646 dbSNP
rs1311686998 653 dbSNP
rs1266300988 661 dbSNP
rs1216540211 662 dbSNP
rs1357252354 666 dbSNP
rs1267630521 672 dbSNP
rs1250161070 674 dbSNP
rs1405327449 675 dbSNP
rs1463744490 687 dbSNP
rs1188161951 688 dbSNP
rs1299063469 693 dbSNP
rs555000248 694 dbSNP
rs930339077 697 dbSNP
rs1254083688 704 dbSNP
rs984375796 712 dbSNP
rs916841007 714 dbSNP
rs1164810010 724 dbSNP
rs114310381 738 dbSNP
rs1384355448 746 dbSNP
rs11172325 749 dbSNP
rs1425029642 754 dbSNP
rs1246266954 761 dbSNP
rs1046612854 764 dbSNP
rs1400800853 774 dbSNP
rs906578915 789 dbSNP
rs1208266203 792 dbSNP
rs1359252326 794 dbSNP
rs935404520 803 dbSNP
rs556832885 805 dbSNP
rs897435349 807 dbSNP
rs1456442113 810 dbSNP
rs893800454 818 dbSNP
rs565482973 819 dbSNP
rs889762750 820 dbSNP
rs1364804070 843 dbSNP
rs1028888362 845 dbSNP
rs1431577379 851 dbSNP
rs889046971 853 dbSNP
rs1167229895 855 dbSNP
rs532741478 883 dbSNP
rs1230129802 886 dbSNP
rs1379436185 886 dbSNP
rs1197114398 888 dbSNP
rs1008698264 904 dbSNP
rs1033066288 916 dbSNP
rs1207677007 937 dbSNP
rs1018736122 939 dbSNP
rs372541980 949 dbSNP
rs893205551 958 dbSNP
rs1010093337 963 dbSNP
rs1345183218 965 dbSNP
rs1020114008 966 dbSNP
rs1273971152 970 dbSNP
rs971316003 972 dbSNP
rs981331655 975 dbSNP
rs1411476329 982 dbSNP
rs5798415 986 dbSNP
rs1034018045 993 dbSNP
rs961893479 1002 dbSNP
rs1197137459 1003 dbSNP
rs1414969528 1005 dbSNP
rs747796662 1017 dbSNP
rs770669811 1021 dbSNP
rs1170837423 1028 dbSNP
rs1480247428 1037 dbSNP
rs984855404 1038 dbSNP
rs1184573317 1041 dbSNP
rs771597160 1043 dbSNP
rs777206983 1044 dbSNP
rs1211522750 1045 dbSNP
rs1470824211 1046 dbSNP
rs962082287 1053 dbSNP
rs1322175893 1066 dbSNP
rs1288644010 1070 dbSNP
rs972955342 1085 dbSNP
rs1371000854 1086 dbSNP
rs1278672735 1098 dbSNP
rs577115032 1105 dbSNP
rs1342145678 1110 dbSNP
rs1165204699 1115 dbSNP
rs144430865 1120 dbSNP
rs369614973 1120 dbSNP
rs1403418681 1129 dbSNP
rs951726018 1131 dbSNP
rs1389437122 1136 dbSNP
rs1322706744 1146 dbSNP
rs149360992 1147 dbSNP
rs1051249770 1149 dbSNP
rs559466642 1151 dbSNP
rs916809251 1152 dbSNP
rs1182745625 1157 dbSNP
rs1411647509 1161 dbSNP
rs1474071674 1163 dbSNP
rs1236276708 1165 dbSNP
rs970049997 1166 dbSNP
rs1054843405 1167 dbSNP
rs982235154 1172 dbSNP
rs1227815875 1176 dbSNP
rs1210221283 1184 dbSNP
rs775994892 1186 dbSNP
rs1314710593 1188 dbSNP
rs1283325283 1189 dbSNP
rs1228637412 1193 dbSNP
rs1358159350 1197 dbSNP
rs529687412 1198 dbSNP
rs1451804612 1205 dbSNP
rs1358795711 1207 dbSNP
rs1322557122 1211 dbSNP
rs1208253028 1212 dbSNP
rs1010707226 1231 dbSNP
rs1289703929 1235 dbSNP
rs1165715390 1243 dbSNP
rs192419907 1244 dbSNP
rs1207941629 1258 dbSNP
rs906994805 1266 dbSNP
rs1002797436 1268 dbSNP
rs1248124113 1274 dbSNP
rs73338249 1282 dbSNP
rs530835639 1284 dbSNP
rs865983168 1285 dbSNP
rs1471629444 1286 dbSNP
rs1162269086 1289 dbSNP
rs1419979508 1291 dbSNP
rs946711653 1293 dbSNP
rs1289313282 1302 dbSNP
rs1245156262 1305 dbSNP
rs1342713643 1312 dbSNP
rs552010898 1317 dbSNP
rs1016330640 1321 dbSNP
rs745597154 1338 dbSNP
rs1212838438 1344 dbSNP
rs879085341 1356 dbSNP
rs1361335134 1360 dbSNP
rs1431331230 1361 dbSNP
rs1254918493 1367 dbSNP
rs1294400732 1368 dbSNP
rs1306138830 1369 dbSNP
rs888999098 1373 dbSNP
rs961835517 1374 dbSNP
rs139948221 1376 dbSNP
rs1392529392 1378 dbSNP
rs1415296895 1380 dbSNP
rs918759331 1389 dbSNP
rs1334974156 1390 dbSNP
rs1418146083 1392 dbSNP
rs1191473930 1411 dbSNP
rs1040303055 1413 dbSNP
rs545769914 1417 dbSNP
rs1221394648 1419 dbSNP
rs1242964283 1420 dbSNP
rs986925040 1426 dbSNP
rs1276750170 1430 dbSNP
rs775356301 1434 dbSNP
rs1202340944 1437 dbSNP
rs1283761838 1438 dbSNP
rs993313515 1443 dbSNP
rs1301990316 1457 dbSNP
rs1221172175 1459 dbSNP
rs911519262 1473 dbSNP
rs1283084391 1491 dbSNP
rs768939337 1504 dbSNP
rs951899437 1505 dbSNP
rs553365952 1514 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
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 GSM714644
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repA
Location of target site ENST00000266643.5 | 3UTR | ACCCCUAUUCCCCACCCCAUGGCCACAGGGCAUCUGGCAAUAAGACUAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
CLIP-seq Viewer Link
MiRNA-Target Expression Profile
Dataset Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
29 hsa-miR-3618 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT378435 SOX4 SRY-box 4 2 2
MIRT459627 GABARAP GABA type A receptor-associated protein 2 2
MIRT471295 PGAM4 phosphoglycerate mutase family member 4 2 2
MIRT471369 PDZD8 PDZ domain containing 8 2 2
MIRT504886 MRPL51 mitochondrial ribosomal protein L51 2 2
MIRT505938 RBM33 RNA binding motif protein 33 2 8
MIRT525461 TMPRSS12 transmembrane protease, serine 12 2 2
MIRT526767 ZNF527 zinc finger protein 527 2 2
MIRT526990 ARL8B ADP ribosylation factor like GTPase 8B 2 2
MIRT528669 PDE4DIP phosphodiesterase 4D interacting protein 2 6
MIRT538462 CNBP CCHC-type zinc finger nucleic acid binding protein 2 2
MIRT542899 HSBP1 heat shock factor binding protein 1 2 2
MIRT550274 AHI1 Abelson helper integration site 1 2 2
MIRT551674 BBS5 Bardet-Biedl syndrome 5 2 2
MIRT551689 ASB16 ankyrin repeat and SOCS box containing 16 2 2
MIRT551755 TRIM42 tripartite motif containing 42 2 2
MIRT555769 PCMTD1 protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1 2 2
MIRT556241 MARCH9 membrane associated ring-CH-type finger 9 2 2
MIRT556926 IRF2BP2 interferon regulatory factor 2 binding protein 2 2 4
MIRT562638 ARID1A AT-rich interaction domain 1A 2 2
MIRT571348 RPL37 ribosomal protein L37 2 2
MIRT612818 KLHL3 kelch like family member 3 2 2
MIRT619329 TIPRL TOR signaling pathway regulator 2 4
MIRT653927 SERPINC1 serpin family C member 1 2 2
MIRT659150 DDHD1 DDHD domain containing 1 2 2
MIRT688334 FAM126B family with sequence similarity 126 member B 2 2
MIRT694760 FZD2 frizzled class receptor 2 2 2
MIRT700477 PUM1 pumilio RNA binding family member 1 2 2
MIRT702375 KLF10 Kruppel like factor 10 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-3618 Ceritinib 57379345 NSC776422 approved resistant High Non-Small Cell Lung Cancer cell line (H3122, H2228)
hsa-mir-3618 Paclitaxel 36314 NSC125973 approved sensitive cell line (W1)
hsa-mir-3618 Cisplatin 5460033 NSC119875 approved sensitive cell line (W1)
hsa-mir-3618 Methotrexate 126941 NSC740 approved sensitive cell line (W1)
hsa-mir-3618 Ceritinib 57379345 NSC776422 approved resistant cell line (H3122)
hsa-miR-3618 Tamoxifen 2733525 NSC180973 approved resistant cell line (LCC2)
hsa-miR-3618 Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)
hsa-miR-3618 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-3618 Paclitaxel/Docetaxel/Vinorelbine/Doxorubicin/Etoposide/Methotrexate/Gemcitabine resistant cell line (Bats-72)
hsa-miR-3618 Paclitaxel/Docetaxel/Vinorelbine/Doxorubicin/Etoposide resistant cell line (Bads-200)

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