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MIR339 Gene

RNA gene   GIFtS: 20
GCID: GC07M001062

MicroRNA 339


(Previous symbol: MIRN339)
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Subcategory (RNA class): miRNA

Quality score for this RNA gene is 8

Aliases
MicroRNA 3391 2
MIRN3391 2
hsa-mir-3392
mir-3399

External Ids:    HGNC: 317761   Entrez Gene: 4429072   Ensembl: ENSG000001990237   
ORGUL members:    fRNAdb10:FR054928 FR054928 FR047390      
miRBase:MI0000815 MIMAT0000583 MIMAT0000764 MIMAT0000584 MIMAT0004702    

Export aliases for MIR339 gene to outside databases

Previous GC identifer: GC07M001030


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for MIR339 Gene:
microRNAs (miRNAs) are short (20-24 nt) non-coding RNAs that are involved in post-transcriptional regulation of
gene expression in multicellular organisms by affecting both the stability and translation of mRNAs. miRNAs are
transcribed by RNA polymerase II as part of capped and polyadenylated primary transcripts (pri-miRNAs) that can
be either protein-coding or non-coding. The primary transcript is cleaved by the Drosha ribonuclease III enzyme
to produce an approximately 70-nt stem-loop precursor miRNA (pre-miRNA), which is further cleaved by the
cytoplasmic Dicer ribonuclease to generate the mature miRNA and antisense miRNA star (miRNA*) products. The
mature miRNA is incorporated into a RNA-induced silencing complex (RISC), which recognizes target mRNAs through
imperfect base pairing with the miRNA and most commonly results in translational inhibition or destabilization of
the target mRNA. The RefSeq represents the predicted microRNA stem-loop. (provided by RefSeq, Sep 2009)

GeneCards Summary for MIR339 Gene:
MIR339 (microRNA 339) is an RNA gene, and is affiliated with the miRNA class. Diseases associated with MIR339 include lung cancer, and breast cancer.



fRNAdb sequence ontology for MIR339:
pre_miRNA - The 60-70 nucleotide region remain after Drosha processing of the primary transcript, that folds back upon itself to form a hairpin sructure.

View fRNAdb secondary structures for MIR339

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Search for regulatory transcription factor binding sites for MIR339
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for MIR339

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat MIR339


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 7p22.3   Ensembl cytogenetic band:  7p22.3   HGNC cytogenetic band: 7p22.3

MIR339 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
MIR339 gene location

GeneLoc information about chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07M001062:  view genomic region (via miRBase)     (about GC identifiers)

Start:
1,062,569 bp from pter      End:
1,062,662 bp from pter
Size:
94 bases      Orientation:
minus strand

1 alternative location:
Chr7-,CRA_TCAG 1,117,456-1,117,546     

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB: --


(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
MIR: ncRNAs / Micro RNAs

  --

(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Animal Models:
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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for MIR339
Interactions:

    Search GeneGlobe Interaction Network for MIR339

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Tocris compounds for MIR339



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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2 fRNAdb Secondary structures:


1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000362153(miRNA)
miRNA
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GeneLoc Exon Structure


(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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Expression evidence for MIR339:miRBase

See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --

MIR339 Protein expression data from MOPED1, PaxDb2 and MaxQB3 --
    Custom PCR Arrays for MIR339
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Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for MIR339

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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  --

ENSEMBL Gene Tree for MIR339 (if available)
TreeFam Gene Tree for MIR339 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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  --

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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8 SNPs for MIR339    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 7 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1931853581,2
C--980285(+) ACATGC/TGGCAA 1 -- us2k10--------
rs1128421221,2
C,F--980308(+) CGCCCG/CACACC 1 -- us2k11Minor allele frequency- C:0.50WA 2
rs22807241,2
C,F,A,H--980329(+) TAGCAG/ACAACT 1 -- us2k125Minor allele frequency- A:0.36EA NS NA WA CSA 3841
rs670632451,2
C--1063303(+) CACAC-/ACACA 
 CACACAC
CAGCA
1 -- us2k11Minor allele frequency- ACACACACACAC:0.00NA 2
rs722304711,2
----1063300(+) ACACA-/CACACA
        
CACAC
1 -- us2k10--------
rs61499541,2
----1063291(+) cacac-/ACACACACAC
ACACACACACAC
ACCAG
1 -- us2k10--------
rs664605831,2
----1063305(+) CACAC-/ACAC  
  ACACAC
CAGCA
1 -- us2k10--------
rs594093841,2
----1063295(+) CACAC-/ACACACACA
CACACACACAC
CAGCA
1 -- us2k10--------

HapMap Linkage Disequilibrium report for MIR339 (1062569 - 1062662 bp)

Structural Variations
     Database of Genomic Variants (DGV) Selected variations for MIR339 (see all 15):    About this table    
Variant IDTypeSubtypePubMed ID
dgv7085n71CNV Loss21882294
dgv7084n71CNV Loss21882294
dgv7083n71CNV Loss21882294
dgv7081n71CNV Loss21882294
nsv887158CNV Loss21882294
nsv887128CNV Loss21882294
dgv7078n71CNV Loss21882294
nsv887141CNV Loss21882294
dgv7082n71CNV Loss21882294
dgv7074n71CNV Loss21882294

Site Specific Mutation Identification with PCR Assays
Search QIAGEN SeqTarget long-range PCR primers for resequencing MIR339
DNA2.0 Custom Variant and Variant Library Synthesis for MIR339

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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3 diseases for MIR339:    About MalaCards
lung cancer    breast cancer    neuronitis


MIR339 for disorders           About GeneDecksing

Human Genome Epidemiology (HuGE) Navigator: MIR339 (1 document)

Export disorders for MIR339 gene to outside databases

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for MIR339 gene integrated from 10 sources:
(articles sorted by number of sources associating them with MIR339)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Genetic polymorphisms in the precursor MicroRNA flanking region and non-small cell lung cancer survival. (PubMed id 20889907)1 Hu Z....Shen H. (Am. J. Respir. Crit. Care Med. 2011)
  2. MiR-339-5p inhibits breast cancer cell migration and invasion in vitro and may be a potential biomarker for breast cancer prognosis. (PubMed id 20932331)1 Wu Z.S....Xu X.C. (BMC Cancer 2010)
  3. Dicer-regulated microRNAs 222 and 339 promote resistance of cancer cells to cytotoxic T-lymphocytes by down-regulation of ICAM-1. (PubMed id 19520829)1 Ueda R....Okada H. (Proc. Natl. Acad. Sci. U.S.A. 2009)
  4. A mammalian microRNA expression atlas based on small RNA library sequencing. (PubMed id 17604727)1 Landgraf P....Tuschl T. (Cell 2007)
  5. miRBase: microRNA sequences, targets and gene nomenclature. (PubMed id 16381832)1 Griffiths-Jones S....Enright A.J. (Nucleic Acids Res. 2006)
  6. New human and mouse microRNA genes found by homology search. (PubMed id 15634332)1 Weber M.J. (FEBS J. 2005)
  7. Identification of many microRNAs that copurify with polyribosomes in mammalian neurons. (PubMed id 14691248)1 Kim J....Ruvkun G. (Proc. Natl. Acad. Sci. U.S.A. 2004)
  8. Altered expression profiles of microRNAs during TPA-induced differentiation of HL-60 cells. (PubMed id 15325244)1 Kasashima K....Kozu T. (Biochem. Biophys. Res. Commun. 2004)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 442907 HGNC: 31776 Ensembl:ENSG00000199023 miRBase: hsa-mir-339 euGenes: HUgn442907
ECgene: MIR339 H-InvDB: MIR339

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for MIR339 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for MIR339 gene:
Search GeneIP for patents involving MIR339

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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