miRTarBase - #MIRT604875


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pre-miRNA Information
pre-miRNA mmu-mir-130a   
Genomic Coordinates chr2: 84741115 - 84741178
Description Mus musculus miR-130a stem-loop
Comment This sequence was named miR-130 in reference , but is renamed here to avoid confusion with miR-130b (MIR:MI0000408).
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-130a-3p
Sequence 42| CAGUGCAAUGUUAAAAGGGCAU |63
Evidence Experimental
Experiments Cloned
Putative Targets

Gene Information
Gene Symbol Map3k12   
Synonyms DLK, MUK, Zpk
Description mitogen-activated protein kinase kinase kinase 12
Transcript NM_001163643   
Other Transcripts NM_009582   
Expression
Putative miRNA Targets on Map3k12
3'UTR of Map3k12
(miRNA target sites are highlighted)		 
>Map3k12|NM_001163643|3'UTR
   1 AAGACACTCTTATTCCTTGTACATAGAGAAATATTTATATAAATAATATATATGCGCCACATAATCAACAGATAGATGGG
  81 GCTTTCTTAGCCTTAAGCCAGGCTTGAGAGTGAACGACGCCCCTGACCAATTACCGAATAAGTTCTGGGGACACTGGCAG
 161 CTGTGGAAATGAATGACTCCGAGTACTACCCTAGAGCTATAAAGAAAGGAAGCTGGCCCCTTCTTGCTTCACCCCATTCC
 241 TTATGTTGAACAAGCAAGTAGGCAATAGAAAAGCCAGGCTTGTCTCTATACTGTCTATCCCTGAACACTGGAGGGGCAGG
 321 TAGAGGATTCACTTAAAACTGCACTTTTATTTTCCGTTTACTGTTTACACATTTTGCACTTGGGAGGAGGGAAAGAAACT
 401 AAGGCTGGGTCATCCCTCTGAGGTTTCTCAGGTGGCAATGTAACTCATTTCTTTGTTCCTGTTTCTCTGCCCAAACCCTG
 481 GCTTTGGGCCAGACGACTAACAGCATGTGATGGCTCAGGCTGAAGAACTGGGGTGCTGTTAGTCCCCACTGTTATCTTGG
 561 TGCCTGGTAGGGGTGGGGACTGTCATATTGTAACCCCTGTGAACAACCTTGAAATATAACCACTCCATGCAGGCCCAACT
 641 GTCGAGGGTTTTCTTGGTGAATGAGTAGAGTGGTATAATACATGGTTTCAACTTGGATTTAAGATTTTATCTGAGGAATT
 721 TGGACAAGTTATTTTCTAAGTTAACATAAATGATAGCAGGTAAACTTTTCTAAATGATTTCAGAACAAGGAGGTCTCAAA
 801 ACACCTATGGAGAAAACTAAATGAACAATTACTAGAACTTTAAAGTATGCAAGGTAGAACAAGGGGCAGCCATTCCCAAG
 881 TTTACTATCCTTACTATCCACGAGTTCCTGCCCAGCTCCATAAATGCACCAGCTGCTCTACAATCCTAGGGTAAGTGTAA
 961 TTGTCAATCTCCGTAAACAAGTTTTCAGAGGCTACCCAGTATCATGGAGGGGGAGGTGATTGAGGGCAAATTAAAAAAAT
1041 TGGAGTGGTAAAAAAGGGAAGAAAGTCCATTAATTCTATTGAAACTGAATCAGGGCTCTCTGGAAGTTAAAAGGTATAAA
1121 AATAACATCAGACAGGAACAACACCCACGTAAGTCACTGTGGCATCCAGTTTCTATTCACAAAGAAAAAGCTCCAGTCCA
1201 TCTTTTAATTTTTTTTTTTGAAAAATTCCTGACATTACAGAACTAAACTGAAATGTATTAATAATCCACTCTTACATTTC
1281 CATGACAAACAAAAATTCATGAGCCAAACAAAAACAAAAACCAAAAAACAAAAGGGGGAGAAGCTTATAAAACTAAATAT
1361 GGATATCTCAGCGTAACTGCTGAACAGAGAAAGGAATTAAAACACTTTAATTAAAAAATCATGAGTGGATGATAAAGTGT
1441 GTAGAAACTGAAAATTTACAAACTATTTTAAAACCTGGAGTCGCTGACTGTTCAGAAACTACACAGATGGATCATGGGTG
1521 GTGAACAGCAGGATTATGGATGGGTCTGCTCTGTTCTAGCTGCTCCCCATGCCACCTGTCTCCGAGGAAAGCCTGTAAAA
1601 CACAAAGAAGAATAAGTCAGCTTACCTAGCTACAATTCATCACACCAAGGTATTTCAAGGTTTCTTAGATTAGCTAGTAC
1681 CATAGTGCACAAGGTTGTTTATGTAACACCACTACAACCAAGGTTCCTGAGGTGTTCTCAGAAGAACATAACAAATGATG
1761 TTAAGTTGGTGACACTGTCTCTTCACGTTTTACTCTTTGCAAACTGAAAGCATTTCTAGAGAACATTAGGCTTCAAGGAG
1841 TTGATCCTGTCGTGTTTACACTAGAACAGCCCACCAATGTGAAGGAACTTTGTGTTGGGAGCCTAACATTTAAAGATATT
1921 ATGTAATTTTAACAATACTTAAAGGGAGGAGCAAGAATAGGAACTATAGTGAAAAATTGAATTATTGTTTTCAAGCTTAT
2001 AATTTTAGGACAAATACCAACAAAAAAACAAGTATCAAAGCTTCAATTCAGTTCCTTAGCTCACTCTTCAAAATCCAAAA
2081 CCTGTGGCCTTACTGGTACCAAATTCTCCTTGTAAACATACCTGGCTACAGTGCCTTTCTACTTGTTTCAAATAGGTCAT
2161 TTGAGGTCCTGGAATACAATTAAGCTTTGAGAGAAAGGCATTCAGTGTACATTTCATTATCACTGGGTAGCAGCAAAATG
2241 CCTCATTCTGAACACAACTAGAGGTGTCTCAGGTCCACACCACAAGCTTAACTTCACAAAGAGCCAACTGACATCCATTT
2321 GTGATGTTTGGCTTAATACCATGTGCACTAAATGTACAAATACCACAGGGGAAGGGGTATATCCCGGAAACTAGAAGTCA
2401 TTCTTCAATTAAAATATGTTTTCTTTAACGTCAG
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' uacgGGAAAAU-UGU--AACGUGAc 5'
              |: |||| |||  ||||||| 
Target 5' tttaCTGTTTACACATTTTGCACTt 3'
 357 - 381 160.00 -9.50
2 
miRNA  3' uaCGGGAAAAUUGUA-ACGUGAc 5'
            | |:|  || ||| |||||| 
Target 5' ttGGCTTAATACCATGTGCACTa 3'
 2328 - 2350 132.00 -9.00
3 
miRNA  3' uacGGGAAAAUUGUAACGUGAc 5'
             ::|  |||| | |||||| 
Target 5' ggaTTCACTTAAAACTGCACTt 3'
 325 - 346 131.00 -7.10
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions mESCs
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 GSM622572. RNA binding protein: AGO2. Condition:WT2 ...

- Leung AK; Young AG; Bhutkar A; Zheng GX; et al., 2011, Nature structural & molecular biology.

Article - Leung AK; Young AG; Bhutkar A; Zheng GX; et al.
- Nature structural & molecular biology, 2011
MicroRNAs (miRNAs) are 19-22-nucleotide noncoding RNAs that post-transcriptionally regulate mRNA targets. We have identified endogenous miRNA binding sites in mouse embryonic stem cells (mESCs), by performing photo-cross-linking immunoprecipitation using antibodies to Argonaute (Ago2) followed by deep sequencing of RNAs (CLIP-seq). We also performed CLIP-seq in Dicer(-)/(-) mESCs that lack mature miRNAs, allowing us to define whether the association of Ago2 with the identified sites was miRNA dependent. A significantly enriched motif, GCACUU, was identified only in wild-type mESCs in 3' untranslated and coding regions. This motif matches the seed of a miRNA family that constitutes ~68% of the mESC miRNA population. Unexpectedly, a G-rich motif was enriched in sequences cross-linked to Ago2 in both the presence and absence of miRNAs. Expression analysis and reporter assays confirmed that the seed-related motif confers miRNA-directed regulation on host mRNAs and that the G-rich motif can modulate this regulation.
LinkOut: [PMID: 21258322]
21 mmu-miR-130a-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT003777 Atxn1 ataxin 1 2 1
MIRT003840 Zfpm2 zinc finger protein, multitype 2 3 1
MIRT015618 Meox2 mesenchyme homeobox 2 2 1
MIRT580135 Ubap2l ubiquitin-associated protein 2-like 1 1
MIRT580368 Tmem25 transmembrane protein 25 1 1
MIRT580806 Snx27 sorting nexin family member 27 1 1
MIRT582792 Kdm2a lysine (K)-specific demethylase 2A 1 1
MIRT590621 Arrdc3 arrestin domain containing 3 1 1
MIRT590766 Acbd5 acyl-Coenzyme A binding domain containing 5 1 1
MIRT592548 Mup7 major urinary protein 7 1 1
MIRT592589 Mup13 major urinary protein 13 1 1
MIRT594101 Nfia nuclear factor I/A 1 1
MIRT595107 Timp2 tissue inhibitor of metalloproteinase 2 1 1
MIRT595359 Fgfr1op2 FGFR1 oncogene partner 2 1 1
MIRT600786 Homez homeodomain leucine zipper-encoding gene 1 1
MIRT604875 Map3k12 mitogen-activated protein kinase kinase kinase 12 1 1
MIRT606374 Inpp5e inositol polyphosphate-5-phosphatase E 1 1
MIRT732598 ATG16L1 autophagy related 16 like 1 4 0
MIRT734762 Il12b interleukin 12b 2 0
MIRT734763 Irf1 interferon regulatory factor 1 2 0
MIRT755991 Trim37 tripartite motif-containing 37 3 1
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-130a N-ethyl-N-nitrosourea NULL 12967 Quantitative real-time PCR mouse liver 21029445 2010 up-regulated
miR-130a Reversine NULL 210332 Quantitative real-time PCR C2C12 myoblast cells 24513286 2014 down-regulated
miR-130a Benzene NULL 241 MiRNA PCR array white blood cell 24780745 2014 down-regulated
miR-130a Benzene NULL 241 MiRNA PCR array blood mononuclear cells 24780745 2014 down-regulated
miR-130a Formaldehyde NULL 712 Microarray Human lung epithelial cells (A549) 21147603 2011 down-regulated
miR-130a 5-aza-2'-deoxycytidine (5-Aza-CdR) approved 451668 Microarray breast cancer HB2 22076154 2011 down-regulated
miR-130a 5-aza-2'-deoxycytidine (5-Aza-CdR) approved 451668 Microarray breast cancer MDA-MB231 22076154 2011 down-regulated
miR-130a Progesterone approved 5994 Microarray Breast cancer 22330642 2012 down-regulated
miR-130a Comfrey NULL 6440495 Microarray rat liver 21370286 2011 up-regulated

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