miRTarBase - #MIRT535155


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pre-miRNA Information
pre-miRNA hsa-mir-4431   
Genomic Coordinates chr2: 52702522 - 52702615
Description Homo sapiens miR-4431 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4431
Sequence 7| GCGACUCUGAAAACUAGAAGGU |28
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 10 2 - 52702600 29233923 MiREDiBase
A-to-I 11 2 - 52702599 29233923 MiREDiBase
A-to-I 16 2 - 52702594 29233923 MiREDiBase
A-to-I 18 2 - 52702592 29233923 MiREDiBase
A-to-I 19 2 - 52702591 29233923 MiREDiBase
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1017194690 2 dbSNP
rs1381255255 3 dbSNP
rs540996200 5 dbSNP
rs527283056 7 dbSNP
rs1429483488 9 dbSNP
rs889873813 16 dbSNP
rs1029784010 19 dbSNP
rs998183185 21 dbSNP
Putative Targets

Gene Information
Gene Symbol PLEKHG5   
Synonyms CMTRIC, DSMA4, GEF720, Syx, Tech
Description pleckstrin homology and RhoGEF domain containing G5
Transcript NM_001042663   
Other Transcripts NM_001042664 , NM_001042665 , NM_020631 , NM_198681   
Expression
Putative miRNA Targets on PLEKHG5
3'UTR of PLEKHG5
(miRNA target sites are highlighted)		 
>PLEKHG5|NM_001042663|3'UTR
   1 GCAGAGGGAGGCCCCCAAGAGTGCCATTGACCAAGAGACAGCAGACAGCCTGCCTCCTGGGGCGTGCCGGCACCTGCTTC
  81 AGCTACTGCCTCCTGTATGCATGAGCCGGATGCTGGGCAGGATCCCTGCCTACGCCCGGGCCCGATTTGCGCTTTGCCGG
 161 ACTGGATGGAGTGGAGGAGGCCCAGGCCACAGTACCACCCCACCTGCCCAGGCAGCCCCTCGTCACCTACTCCCCGAAGT
 241 TACCAGCTCAGCTCGAGTCTTCAGGGCTGGGCTCCTAGGCTGCCCATCCTACTTCTACCCTCACTGGCCTCCAGTGGGAT
 321 TCACTCCTGCCCTGCCCCCACCTTCCCAGTCCCACAGGCCACCCCTGGCTTGGGCTGGGTTCTGTGAAGTTACGTATTTA
 401 TTGAGCTTTTGGTTCTTTTATAAAGACTTGTCTAGACTCCACTGGGAAGAGTCCTTTGCTTTGGGGCCCAGTGACTCGGG
 481 GCACTTGAGTTCAGGGCGGCCTCCTTGTGTTCCTGTGCTCCTCCACTTGCCACGGATGGGCCACGGATGGAGCTTGCCAT
 561 GGGAAGCACTGGGAAGTAATGGGGTGTGGGGTGCCACCAGACCAACACCCCCAGACTTCCCCACCTTCAGCCACCATCAG
 641 AGCCTCTCCCCAGGTGCCCCCCGGGGATTCAGGGCTGAATCTGCCCAGTTCCCACACTCAGGCCAGCCCTCTTGGGAAGG
 721 TGGGTCCTCCATGGGGGTCCCTTCAGGAACTTTTTTTTTTTTTTTAATACAGAGTCTCACTCTGTCACCTAGGTTGGAGT
 801 GCAGTGGTGTGATGTCGGCTCACTGCAACCTCTGCCTCCCGGGTTCAAACGATTCTCCTGCCCCAGCCACTCTAGTAGCT
 881 GGAACTGCAGGTGTGCACCACCACGCCGGGCTAGTTTTTGTATTTTAAGTAGAGACGGCATTTCACCATATTGGTCAGGC
 961 TGGTCTCGAACTCCTGACCCCAAGTGTTCCGCCCGCCTCTGCCTCCCATAGTGCTAGAATTACAGGCCTGAGCTACTGCG
1041 CTTGGCCCCTTGCGGTACTTTTGGCCCAACCTCCTCCATGGCTGGGGACGCGGAGGCCGAGAGAGAAGTCACTTGCCCTG
1121 GCTCTACCTTGAAGTGGTTCTCAGGGTTGGGGCGAGAGTCGGGGTGGGGACCGAGATGCAGCTCTATCCTGTGCCCCTGG
1201 TCGCAGCAGGCAGCCCAGCGCTTCGCGTGTTCTACTTGGCCTGTCCGCTGCCGCCTAATGAGCTCAGGTCTAGGCCGAGC
1281 AGAGGGGGCACCTGGTCGGACTCGGTTGGGCTCGGGCGGCCCCGCCTCCCCCCGCCCGCCAGGCGGGCCCTTCTCGACGG
1361 CGCGGGGCGGGCCCTGCGGGCGCGGGGCTGAAGGCGGAACCACGACGGGCAGAGAGCACGGAGCCGGGAAGCCCCTGGGC
1441 GCCCGTCGGAGGGCTATGGAGCAGCGGCCGC
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' uggAAGA-UCAAAA----G-UCUCAGCg 5'
             |||| ||  ||    | ||||||| 
Target 5' tggTTCTCAGGGTTGGGGCGAGAGTCGg 3'
 1135 - 1162 149.00 -13.90
2 
miRNA  3' ugGAAGAUCAAAA----GUCUCAGcg 5'
            :||:|  ||||    |||||||  
Target 5' ttTTTTTTTTTTTAATACAGAGTCtc 3'
 753 - 778 142.00 -10.70
3 
miRNA  3' ugGAAGAUCAAAA---GUCUCAGCg 5'
            :|| || ||||   :|||| || 
Target 5' ttTTTGTA-TTTTAAGTAGAGACGg 3'
 915 - 938 127.00 -6.90
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
297932 27 ClinVar
874745 63 ClinVar
297931 68 ClinVar
297930 108 ClinVar
874744 159 ClinVar
297929 192 ClinVar
873791 236 ClinVar
873790 285 ClinVar
297928 290 ClinVar
873789 304 ClinVar
297927 363 ClinVar
COSN30513250 17 COSMIC
COSN15330443 27 COSMIC
COSN30190953 35 COSMIC
COSN30485919 56 COSMIC
COSN30184507 59 COSMIC
COSN20074030 67 COSMIC
COSN30638101 93 COSMIC
COSN30524005 109 COSMIC
COSN13556517 114 COSMIC
COSN30475381 137 COSMIC
COSN30183141 138 COSMIC
COSN31532632 151 COSMIC
COSN31491502 157 COSMIC
COSN30659945 159 COSMIC
COSN26989432 161 COSMIC
COSN30523982 165 COSMIC
COSN31611709 195 COSMIC
COSN31485037 370 COSMIC
COSN26558895 406 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1486930266 10 dbSNP
rs771326239 12 dbSNP
rs369298951 14 dbSNP
rs772599524 17 dbSNP
rs1187706576 19 dbSNP
rs1482525804 26 dbSNP
rs117494970 27 dbSNP
rs1231556054 46 dbSNP
rs747777905 50 dbSNP
rs371256508 52 dbSNP
rs1469578115 53 dbSNP
rs933373196 59 dbSNP
rs45446394 63 dbSNP
rs544841673 64 dbSNP
rs886046496 68 dbSNP
rs184257653 69 dbSNP
rs1344388642 73 dbSNP
rs974747891 76 dbSNP
rs1443349894 78 dbSNP
rs1052527507 83 dbSNP
rs1328994629 84 dbSNP
rs1445776829 86 dbSNP
rs1354956274 97 dbSNP
rs547409133 101 dbSNP
rs1172443919 106 dbSNP
rs935523441 107 dbSNP
rs11800788 108 dbSNP
rs113278522 114 dbSNP
rs969670994 120 dbSNP
rs1378106622 122 dbSNP
rs766348219 124 dbSNP
rs902771267 125 dbSNP
rs1426324715 133 dbSNP
rs1481155584 134 dbSNP
rs201019270 137 dbSNP
rs573848391 138 dbSNP
rs1011504629 141 dbSNP
rs959755898 143 dbSNP
rs1236626846 144 dbSNP
rs1055267470 146 dbSNP
rs1224610853 150 dbSNP
rs1035464149 151 dbSNP
rs1036693653 152 dbSNP
rs939899786 158 dbSNP
rs909809050 159 dbSNP
rs1443871645 160 dbSNP
rs555094465 164 dbSNP
rs1436059461 167 dbSNP
rs961905331 170 dbSNP
rs1351837219 174 dbSNP
rs932495474 177 dbSNP
rs921130518 183 dbSNP
rs1016178075 184 dbSNP
rs1180500757 187 dbSNP
rs886046495 192 dbSNP
rs1378533140 200 dbSNP
rs1258830495 204 dbSNP
rs1006509731 206 dbSNP
rs889044805 221 dbSNP
rs1450886542 222 dbSNP
rs1216743738 226 dbSNP
rs1318979154 233 dbSNP
rs1360103228 235 dbSNP
rs1308834107 236 dbSNP
rs1226407511 246 dbSNP
rs1298012548 254 dbSNP
rs1416611000 255 dbSNP
rs1358035953 258 dbSNP
rs1287828743 260 dbSNP
rs1453949819 262 dbSNP
rs540203808 271 dbSNP
rs1163039546 273 dbSNP
rs1018919087 274 dbSNP
rs1419102062 283 dbSNP
rs572888702 285 dbSNP
rs14708 290 dbSNP
rs1400716427 298 dbSNP
rs549168459 304 dbSNP
rs1022990211 315 dbSNP
rs1263917824 320 dbSNP
rs1221191640 322 dbSNP
rs935500428 324 dbSNP
rs1011183413 327 dbSNP
rs925404920 339 dbSNP
rs1235033324 355 dbSNP
rs1338359147 357 dbSNP
rs186882493 363 dbSNP
rs895293564 364 dbSNP
rs1382303977 372 dbSNP
rs1363560336 373 dbSNP
rs1043908737 379 dbSNP
rs1180035484 382 dbSNP
rs1460635047 385 dbSNP
rs769048416 393 dbSNP
rs796525345 394 dbSNP
rs948276190 401 dbSNP
rs1430371993 406 dbSNP
rs1265445278 411 dbSNP
rs1190795201 425 dbSNP
rs1257931233 430 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions hESCs (WA-09)
Disease 57449.0
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 SRR359787. RNA binding protein: AGO2. Condition:4-thiouridine ...

- Lipchina I; Elkabetz Y; Hafner M; Sheridan et al., 2011, Genes & development.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' uggaagAUCAAAAGUCUCAGCg 5'
                |:||| ||||:||:| 
Target 5' ------UGGUUCUCAGGGUUGg 3'
 		1 - 16
Article - Lipchina I; Elkabetz Y; Hafner M; Sheridan et al.
- Genes & development, 2011
MicroRNAs are important regulators in many cellular processes, including stem cell self-renewal. Recent studies demonstrated their function as pluripotency factors with the capacity for somatic cell reprogramming. However, their role in human embryonic stem (ES) cells (hESCs) remains poorly understood, partially due to the lack of genome-wide strategies to identify their targets. Here, we performed comprehensive microRNA profiling in hESCs and in purified neural and mesenchymal derivatives. Using a combination of AGO cross-linking and microRNA perturbation experiments, together with computational prediction, we identified the targets of the miR-302/367 cluster, the most abundant microRNAs in hESCs. Functional studies identified novel roles of miR-302/367 in maintaining pluripotency and regulating hESC differentiation. We show that in addition to its role in TGF-beta signaling, miR-302/367 promotes bone morphogenetic protein (BMP) signaling by targeting BMP inhibitors TOB2, DAZAP2, and SLAIN1. This study broadens our understanding of microRNA function in hESCs and is a valuable resource for future studies in this area.
LinkOut: [PMID: 22012620]
CLIP-seq Support 1 for dataset SRR359787
Method / RBP PAR-CLIP / AGO2
Cell line / Condition hESCs (WA-09) / 4-thiouridine, RNase T1
Location of target site ENST00000377725.1 | 3UTR | UGGUUCUCAGGGUUGGGGCGAGA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 22012620 / SRX103431
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
8 hsa-miR-4431 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT446873 NBPF3 NBPF member 3 2 2
MIRT507489 E2F7 E2F transcription factor 7 2 4
MIRT535155 PLEKHG5 pleckstrin homology and RhoGEF domain containing G5 2 2
MIRT676600 ARIH2OS ariadne RBR E3 ubiquitin protein ligase 2 opposite strand 2 2
MIRT699665 SFT2D2 SFT2 domain containing 2 2 2
MIRT721783 ARL6IP4 ADP ribosylation factor like GTPase 6 interacting protein 4 2 2
MIRT723489 WDR33 WD repeat domain 33 2 2
MIRT724605 AP3B1 adaptor related protein complex 3 beta 1 subunit 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-4431 Cisplatin 5460033 NSC119875 approved resistant High Ovarian Cancer cell line (A2780CP20)
hsa-mir-4431 Cisplatin 5460033 NSC119875 approved resistant cell line (CP20)
hsa-miR-4431 Gefitinib 123631 NSC715055 approved resistant cell line (PC9)
hsa-miR-4431 Osimertinib 71496458 NSC779217 approved resistant cell line (PC9)
hsa-miR-4431 Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-4431 Vemurafenib 42611257 NSC761431 approved sensitive cell line (LM36)
hsa-miR-4431 Vemurafenib 42611257 NSC761431 approved resistant cell line (LM16)

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