pre-miRNA Information
pre-miRNA hsa-mir-4477a   
Genomic Coordinates chr9: 41233755 - 41233835
Description Homo sapiens miR-4477a stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4477a
Sequence 48| CUAUUAAGGACAUUUGUGAUUC |69
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1281813060 1 dbSNP
rs1352899679 1 dbSNP
rs1283566158 2 dbSNP
rs1236244724 4 dbSNP
rs75019967 4 dbSNP
rs1348124293 5 dbSNP
rs34026740 8 dbSNP
rs1288237115 9 dbSNP
rs71262206 10 dbSNP
rs1355759977 11 dbSNP
rs1300249508 16 dbSNP
rs1328879592 18 dbSNP
rs139133717 20 dbSNP
Putative Targets

Gene Information
Gene Symbol MEMO1   
Synonyms C2orf4, CGI-27, MEMO, NS5ATP7
Description mediator of cell motility 1
Transcript NM_001137602   
Other Transcripts NM_015955   
Expression
Putative miRNA Targets on MEMO1
3'UTR of MEMO1
(miRNA target sites are highlighted)
>MEMO1|NM_001137602|3'UTR
   1 AGCTCTGAATCCTCAGGGATGCCACCTGCACATTCTCATACTCTGTCCGGGGTCCCAGCCTAGCCTTTACCACGATACTG
  81 GTCCTGGTTTGGGGGGATTCTGAAACCTCAAACTAATAGAACTTTCTTCTCTTTTTTTCTAGTAGGTGTAGTCCTTCCTT
 161 AATTTCAACTCATTAAAAAATGCTTTATAGTTTAGGGCAGTGGAAGGAAGGCTGGCATCAAAATATTTTGATCAAAAAAG
 241 ATGACAATGTAAAGGCTCAGTTGTGGCAGACAGTTTTTTGAAAGTAACTTGTAAAGCATTTACCATATCCTAAATTTGCA
 321 CTCTTTGCAGACTTGTGCACATATATTCCGCTTTCAGAATAGTTTTGCAAATTGTACACAAACAAACAAAAAGGTGGAAG
 401 CTTTTTAATAAAGAAATTGCATTTATAAATGATCTGTATTAGAATATAATAAATCTCCAGTTATAGTCAATTACTACCCA
 481 TGTTGTACAACAGATACCTTCTATTTTAGTTGCTAATAAAGGGCTACACAACTCAAAATAGTCTGATTTAAAAAAAAAAA
 561 AAAAAAA
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' cuuAGUGUUUAC-------AGGAAUUAuc 5'
             | ::|::||       ||||||||  
Target 5' ttcTAGTAGGTGTAGTCCTTCCTTAATtt 3'
137 - 165 131.00 -8.70
2
miRNA  3' cuUAG-UGUUUACAGGAAUUAUc 5'
            ||: | |||||  ||| ||| 
Target 5' tcATTAAAAAATG--CTTTATAg 3'
170 - 190 128.00 -5.90
3
miRNA  3' cuuAGUGUUUACAGGA-AUUAUc 5'
             |:|:||||| :|| || || 
Target 5' catTTATAAATGATCTGTATTAg 3'
420 - 442 111.00 -9.80
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30101110 48 COSMIC
COSN31612952 60 COSMIC
COSN31506750 73 COSMIC
COSN29467437 202 COSMIC
COSN28813924 296 COSMIC
COSN30176481 350 COSMIC
COSN31489932 534 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1374233804 2 dbSNP
rs1462782715 5 dbSNP
rs1168227475 7 dbSNP
rs751927794 11 dbSNP
rs1410092428 14 dbSNP
rs764813797 18 dbSNP
rs756928464 21 dbSNP
rs753472562 22 dbSNP
rs1001832867 23 dbSNP
rs1299882000 28 dbSNP
rs1376263734 33 dbSNP
rs1257985858 37 dbSNP
rs376717212 40 dbSNP
rs763637397 42 dbSNP
rs764131957 44 dbSNP
rs760125759 47 dbSNP
rs144466744 48 dbSNP
rs767562663 49 dbSNP
rs1336540624 51 dbSNP
rs1014263878 52 dbSNP
rs1216455403 59 dbSNP
rs886475625 63 dbSNP
rs532002978 73 dbSNP
rs1308507998 74 dbSNP
rs1207243094 79 dbSNP
rs1047832026 84 dbSNP
rs1482938718 87 dbSNP
rs1188786845 97 dbSNP
rs1259749562 97 dbSNP
rs1476949288 101 dbSNP
rs930739062 117 dbSNP
rs1418519024 119 dbSNP
rs1245484475 122 dbSNP
rs879006531 126 dbSNP
rs1316265957 130 dbSNP
rs1172376833 139 dbSNP
rs562978376 145 dbSNP
rs190783152 168 dbSNP
rs1312928894 169 dbSNP
rs1039216400 171 dbSNP
rs943584441 172 dbSNP
rs1397737386 181 dbSNP
rs939525365 181 dbSNP
rs912148257 184 dbSNP
rs928197282 187 dbSNP
rs1312087899 188 dbSNP
rs186930444 191 dbSNP
rs988167657 198 dbSNP
rs865842479 206 dbSNP
rs1022405246 211 dbSNP
rs1475592147 216 dbSNP
rs933649071 218 dbSNP
rs1188084611 220 dbSNP
rs989235137 224 dbSNP
rs554457452 227 dbSNP
rs1453706718 230 dbSNP
rs953891368 247 dbSNP
rs1197452896 248 dbSNP
rs541228601 249 dbSNP
rs1345448701 251 dbSNP
rs1393028236 254 dbSNP
rs1432504486 258 dbSNP
rs1273417045 271 dbSNP
rs1235660851 274 dbSNP
rs1367415287 274 dbSNP
rs1306273063 280 dbSNP
rs1351524003 288 dbSNP
rs573326541 290 dbSNP
rs1285170382 293 dbSNP
rs1453755413 296 dbSNP
rs997992694 305 dbSNP
rs1244756044 308 dbSNP
rs35697513 310 dbSNP
rs1343936067 313 dbSNP
rs1194114241 315 dbSNP
rs1396830146 319 dbSNP
rs1437231807 328 dbSNP
rs62142066 330 dbSNP
rs1157447157 332 dbSNP
rs1408135296 336 dbSNP
rs553522483 344 dbSNP
rs957135949 349 dbSNP
rs1394118154 351 dbSNP
rs1442115011 358 dbSNP
rs1473125221 362 dbSNP
rs1375372224 363 dbSNP
rs1015502914 366 dbSNP
rs1033228688 370 dbSNP
rs1353011460 374 dbSNP
rs1226822209 383 dbSNP
rs886432980 386 dbSNP
rs1428977304 391 dbSNP
rs979963772 391 dbSNP
rs372513207 393 dbSNP
rs970335977 410 dbSNP
rs1456365194 413 dbSNP
rs994850187 417 dbSNP
rs1024219612 421 dbSNP
rs1470881350 422 dbSNP
rs1161035552 431 dbSNP
rs1055228194 434 dbSNP
rs939497522 455 dbSNP
rs539806594 463 dbSNP
rs1014211606 464 dbSNP
rs886421746 469 dbSNP
rs1042603811 470 dbSNP
rs945663980 478 dbSNP
rs914907281 485 dbSNP
rs989519243 493 dbSNP
rs1235418456 515 dbSNP
rs953753157 528 dbSNP
rs1274794672 530 dbSNP
rs920991188 534 dbSNP
rs1026337346 539 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HEK293S
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 GSM1084065. RNA binding protein: AGO2. Condition:CLIP_emetine_AbnovaAb ...

- Karginov FV; Hannon GJ, 2013, Genes & development.

Article - Karginov FV; Hannon GJ
- Genes & development, 2013
When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.
LinkOut: [PMID: 23824327]
CLIP-seq Support 1 for dataset GSM1084065
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_emetine_AbnovaAb
Location of target site ENST00000295065.5 | 3UTR | AAAAGGUGGAAGCUUUUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
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
134 hsa-miR-4477a Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT055843 PLEKHA1 pleckstrin homology domain containing A1 2 10
MIRT061259 AMOTL1 angiomotin like 1 2 4
MIRT071895 BTF3L4 basic transcription factor 3 like 4 2 6
MIRT076933 MLLT6 MLLT6, PHD finger containing 2 2
MIRT078652 ICT1 mitochondrial ribosomal protein L58 2 2
MIRT083633 PRNP prion protein 2 2
MIRT091629 RPL15 ribosomal protein L15 2 4
MIRT107076 PPP6C protein phosphatase 6 catalytic subunit 2 2
MIRT111191 TRIM33 tripartite motif containing 33 2 2
MIRT114515 ARF6 ADP ribosylation factor 6 2 2
MIRT175250 PSAT1 phosphoserine aminotransferase 1 2 4
MIRT175430 ACSL4 acyl-CoA synthetase long chain family member 4 2 2
MIRT178687 FAM102B family with sequence similarity 102 member B 2 2
MIRT189771 CDADC1 cytidine and dCMP deaminase domain containing 1 2 2
MIRT229450 RPL10 ribosomal protein L10 2 2
MIRT244899 PHF6 PHD finger protein 6 2 2
MIRT249189 AKIRIN1 akirin 1 2 8
MIRT261134 TRIM8 tripartite motif containing 8 2 2
MIRT275561 ZIC5 Zic family member 5 2 4
MIRT275652 ABHD13 abhydrolase domain containing 13 2 2
MIRT288082 UTP18 UTP18, small subunit processome component 2 2
MIRT303605 MTHFD2 methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2, methenyltetrahydrofolate cyclohydrolase 2 2
MIRT307924 ARL8B ADP ribosylation factor like GTPase 8B 2 2
MIRT316787 FOXC1 forkhead box C1 2 2
MIRT326910 SCML2 Scm polycomb group protein like 2 2 2
MIRT327713 SPIN4 spindlin family member 4 2 2
MIRT331632 AASDHPPT aminoadipate-semialdehyde dehydrogenase-phosphopantetheinyl transferase 2 2
MIRT342506 TMOD3 tropomodulin 3 2 4
MIRT354470 LRRC58 leucine rich repeat containing 58 2 2
MIRT378711 TRIM24 tripartite motif containing 24 2 2
MIRT407462 YDJC YdjC chitooligosaccharide deacetylase homolog 2 2
MIRT408226 SMAD5 SMAD family member 5 2 4
MIRT441824 ALG14 ALG14, UDP-N-acetylglucosaminyltransferase subunit 2 2
MIRT442783 CHD8 chromodomain helicase DNA binding protein 8 2 2
MIRT443184 NHS NHS actin remodeling regulator 2 4
MIRT447615 CUL3 cullin 3 2 2
MIRT450156 DSEL dermatan sulfate epimerase-like 2 2
MIRT454801 NEDD9 neural precursor cell expressed, developmentally down-regulated 9 2 2
MIRT463050 ZNF644 zinc finger protein 644 2 2
MIRT467400 SOCS3 suppressor of cytokine signaling 3 2 2
MIRT468174 SGMS1 sphingomyelin synthase 1 2 2
MIRT468949 RPS14 ribosomal protein S14 2 6
MIRT469835 R3HDM4 R3H domain containing 4 2 2
MIRT470724 POFUT1 protein O-fucosyltransferase 1 2 2
MIRT470902 PLIN3 perilipin 3 2 2
MIRT472467 NAPG NSF attachment protein gamma 2 12
MIRT472602 NAA50 N(alpha)-acetyltransferase 50, NatE catalytic subunit 2 2
MIRT492350 SEMA7A semaphorin 7A (John Milton Hagen blood group) 2 2
MIRT493840 FOXN3 forkhead box N3 2 4
MIRT496318 DOCK9 dedicator of cytokinesis 9 2 2
MIRT500159 CLEC2D C-type lectin domain family 2 member D 2 8
MIRT500535 XPO4 exportin 4 2 4
MIRT503916 FBXL13 F-box and leucine rich repeat protein 13 2 4
MIRT504003 SAT1 spermidine/spermine N1-acetyltransferase 1 2 4
MIRT505647 SHMT1 serine hydroxymethyltransferase 1 2 4
MIRT506574 MIER3 MIER family member 3 2 4
MIRT506945 HS3ST3B1 heparan sulfate-glucosamine 3-sulfotransferase 3B1 2 4
MIRT508196 RPS19 ribosomal protein S19 2 6
MIRT511417 HSPA13 heat shock protein family A (Hsp70) member 13 2 4
MIRT512326 ACTB actin beta 2 4
MIRT515376 RPL7 ribosomal protein L7 2 2
MIRT520422 TUBG1 tubulin gamma 1 2 4
MIRT524844 ARPP19 cAMP regulated phosphoprotein 19 2 2
MIRT526320 UGT2A1 UDP glucuronosyltransferase family 2 member A1 complex locus 2 2
MIRT526561 UGT2A2 UDP glucuronosyltransferase family 2 member A2 2 2
MIRT528027 FEZ2 fasciculation and elongation protein zeta 2 2 2
MIRT529874 RBM43 RNA binding motif protein 43 2 2
MIRT530826 CLEC4D C-type lectin domain family 4 member D 2 2
MIRT531334 GDPD1 glycerophosphodiester phosphodiesterase domain containing 1 2 2
MIRT532068 CCNB1 cyclin B1 2 4
MIRT532870 ZNF566 zinc finger protein 566 2 2
MIRT535580 NUP35 nucleoporin 35 2 2
MIRT537644 ERGIC2 ERGIC and golgi 2 2 4
MIRT537725 ELAVL2 ELAV like RNA binding protein 2 2 2
MIRT538894 BRI3BP BRI3 binding protein 2 2
MIRT538945 BMP2K BMP2 inducible kinase 2 2
MIRT540703 PDPK1 3-phosphoinositide dependent protein kinase 1 2 4
MIRT543210 TMEM117 transmembrane protein 117 2 3
MIRT543357 LYRM2 LYR motif containing 2 2 2
MIRT544905 CLSPN claspin 2 2
MIRT545532 ARF3 ADP ribosylation factor 3 2 2
MIRT546446 SMOC1 SPARC related modular calcium binding 1 2 2
MIRT546882 PURB purine rich element binding protein B 2 4
MIRT547440 MED13 mediator complex subunit 13 2 2
MIRT548027 GOLIM4 golgi integral membrane protein 4 2 2
MIRT548673 CRNKL1 crooked neck pre-mRNA splicing factor 1 2 2
MIRT550435 LLGL2 LLGL2, scribble cell polarity complex component 2 2
MIRT551850 RPS3 ribosomal protein S3 2 2
MIRT556072 MRFAP1 Morf4 family associated protein 1 2 2
MIRT556554 LIMS1 LIM zinc finger domain containing 1 2 2
MIRT557132 HOXA13 homeobox A13 2 2
MIRT557875 FEM1B fem-1 homolog B 2 4
MIRT558146 ELK4 ELK4, ETS transcription factor 2 2
MIRT558862 CD2AP CD2 associated protein 2 2
MIRT558884 CCNE1 cyclin E1 2 4
MIRT558907 CBX5 chromobox 5 2 2
MIRT559175 BRAP BRCA1 associated protein 2 2
MIRT560860 GAL3ST3 galactose-3-O-sulfotransferase 3 2 2
MIRT561729 PPIF peptidylprolyl isomerase F 2 2
MIRT564024 CEBPB CCAAT/enhancer binding protein beta 2 2
MIRT564366 TRMT5 tRNA methyltransferase 5 2 2
MIRT564609 ZNF703 zinc finger protein 703 2 2
MIRT565494 AZF1 azoospermia factor 1 2 2
MIRT565577 SLC6A8 solute carrier family 6 member 8 2 2
MIRT566947 LEPROT leptin receptor overlapping transcript 2 2
MIRT567293 HNRNPA2B1 heterogeneous nuclear ribonucleoprotein A2/B1 2 2
MIRT567308 HMGN2 high mobility group nucleosomal binding domain 2 2 2
MIRT568048 CHSY1 chondroitin sulfate synthase 1 2 2
MIRT571807 PHF19 PHD finger protein 19 2 2
MIRT609234 RBM23 RNA binding motif protein 23 2 2
MIRT610328 SSX5 SSX family member 5 2 2
MIRT611428 UGT8 UDP glycosyltransferase 8 2 4
MIRT611709 SLFN13 schlafen family member 13 2 2
MIRT612069 CEP135 centrosomal protein 135 2 4
MIRT617676 JRKL JRK like 2 2
MIRT623684 HNRNPA1 heterogeneous nuclear ribonucleoprotein A1 2 2
MIRT635634 PRR15L proline rich 15 like 2 2
MIRT636422 MBOAT2 membrane bound O-acyltransferase domain containing 2 2 2
MIRT637011 GPATCH11 G-patch domain containing 11 2 2
MIRT644150 C4orf3 chromosome 4 open reading frame 3 2 2
MIRT648562 MEMO1 mediator of cell motility 1 2 2
MIRT650752 WNT16 Wnt family member 16 2 2
MIRT651914 UEVLD UEV and lactate/malate dehyrogenase domains 2 2
MIRT653556 SLC38A7 solute carrier family 38 member 7 2 2
MIRT692277 XRN2 5'-3' exoribonuclease 2 2 2
MIRT697650 WNK1 WNK lysine deficient protein kinase 1 2 2
MIRT703876 ERCC6 ERCC excision repair 6, chromatin remodeling factor 2 2
MIRT704615 CLIP1 CAP-Gly domain containing linker protein 1 2 2
MIRT708562 BBOX1 gamma-butyrobetaine hydroxylase 1 2 2
MIRT709614 KBTBD6 kelch repeat and BTB domain containing 6 2 2
MIRT712955 SGCD sarcoglycan delta 2 2
MIRT713502 DCAF17 DDB1 and CUL4 associated factor 17 2 2
MIRT720239 GPBP1 GC-rich promoter binding protein 1 2 2
MIRT724255 GLUD1 glutamate dehydrogenase 1 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4477a Imatinib 5291 NSC743414 approved sensitive High Gastrointestinal Stromal Tumor cell line (882R-NC, 882R-OE, 882R-KD)
hsa-miR-4477a Osimertinib 71496458 NSC779217 approved resistant cell line (HCC827)
hsa-miR-4477a Vemurafenib 42611257 NSC761431 approved resistant cell line (451Lu)

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