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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

FBXO39 Gene

protein-coding   GIFtS: 43
GCID: GC17P006679

F-Box Protein 39

  See related disease
at  

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

Aliases
F-Box Protein 391 2
FBX393 5
Fbx392
F-Box Only Protein 392

External Ids:    HGNC: 285651   Entrez Gene: 1625172   Ensembl: ENSG000001772947   OMIM: 6091065   UniProtKB: Q8N4B43   

Export aliases for FBXO39 gene to outside databases

Previous GC identifers: GC17P006881 GC17P006620


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for FBXO39 Gene:
Members of the F-box protein family, such as FBXO39, are characterized by an approximately 40-amino acid F-box
motif. SCF complexes, formed by SKP1 (MIM 601434), cullin (see CUL1; MIM 603134), and F-box proteins, act as
protein-ubiquitin ligases. F-box proteins interact with SKP1 through the F box, and they interact with
ubiquitination targets through other protein interaction domains (Jin et al., 2004 (PubMed 15520277)).(supplied
by OMIM, Mar 2008)

GeneCards Summary for FBXO39 Gene: 
FBXO39 (F-box protein 39) is a protein-coding gene. Diseases associated with FBXO39 include colon cancer.

UniProtKB/Swiss-Prot: FBX39_HUMAN, Q8N4B4
Function: Substrate-recognition component of the SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex
(By similarity)




(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000017.10  NT_010718.16  NC_018928.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the FBXO39 gene promoter:
         Spz1   AP-1   AML1a   NF-YA   NF-YB   CBF-B   CBF-A   CP1A   NF-Y   CBF(2)   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidFBXO39 promoter sequence
   Search SABiosciences Chromatin IP Primers for FBXO39

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat FBXO39


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

Entrez Gene cytogenetic band: 17p13.1   Ensembl cytogenetic band:  17p13.1   HGNC cytogenetic band: 17p13.2

FBXO39 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
FBXO39 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P006679:  view genomic region     (about GC identifiers)

Start:
6,679,542 bp from pter      End:
6,700,420 bp from pter
Size:
20,879 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: FBX39_HUMAN, Q8N4B4 (See protein sequence)
Recommended Name: F-box only protein 39  
Size: 442 amino acids; 52646 Da
Subunit: Directly interacts with SKP1 and CUL1 (By similarity)

Explore the universe of human proteins at neXtProt for FBXO39: NX_Q8N4B4

Explore proteomics data for FBXO39 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q8N4B4

  • FBXO39 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    FBXO39 Protein Expression
    REFSEQ proteins: NP_694962.1  
    ENSEMBL proteins: 
     ENSP00000321386   ENSP00000459284   ENSP00000458890  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    FBXO: F-boxes / "other"

    2 InterPro protein domains:
     IPR001611 Leu-rich_rpt
     IPR001810 F-box_dom_cyclin-like

    Graphical View of Domain Structure for InterPro Entry Q8N4B4

    ProtoNet protein and cluster: Q8N4B4

    1 Blocks protein domain: IPB001611 Leucine-rich repeat signature

    UniProtKB/Swiss-Prot: FBX39_HUMAN, Q8N4B4
    Similarity: Contains 1 F-box domain


    FBXO39 for domains           About GeneDecksing


    (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,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: FBX39_HUMAN, Q8N4B4
    Function: Substrate-recognition component of the SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex
    (By similarity)

    Phenotypes:
         2 GenomeRNAi human phenotypes for FBXO39:

     Increased cell death HMECs cel  Upregulation of NF-kappaB path 

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    (Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for FBXO39

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for FBXO39 (FBX39)

    Search CenterWatch for drugs/clinical trials and news about FBXO39 / FBX39

    (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,
    RNAi Products from EMD Millipore,
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    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for FBXO39 gene: 
    NM_153230.2  

    Unigene Cluster for FBXO39:

    F-box protein 39
    Hs.368364  [show with all ESTs]
    Unigene Representative Sequence: BC034782
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000321535(uc010vtg.2) ENST00000572251 ENST00000575022(uc010cls.1)

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    Inhib. RNA
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat FBXO39
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat FBXO39

    Additional mRNA sequence: 

    AK308712.1 AK311148.1 BC034782.1 

    1 DOTS entry:

    DT.95149485 

    7 AceView cDNA sequences:

    BM554273 BI828632 NM_153230 AI187213 BC034782 AI125619 BI831252 

    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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    FBXO39 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: ACCTGAAGGC
    FBXO39 Expression
    About this image


    See FBXO39 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for FBXO39

    SOURCE GeneReport for Unigene cluster: Hs.368364
        SABiosciences Custom PCR Arrays for FBXO39
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for FBXO39

    (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)
    About This Section

    This gene was present in the common ancestor of chordates.

    Orthologs for FBXO39 gene from 2/8 species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Fbxo391 , 5 F-box protein 391, 5 84.01(n)1
    83.94(a)1
      11 (44.00 cM)5
    6281001  NM_001099688.21  NP_001093158.11 
     723144445 
    chicken
    (Gallus gallus)
    Aves FBXO391 F-box protein 39 68.65(n)
    63.24(a)
      776097  XM_003642419.1  XP_003642467.1 


    ENSEMBL Gene Tree for FBXO39 (if available)
    TreeFam Gene Tree for FBXO39 (if available)

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

    (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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/346 SNPs in FBXO39 are shown (see all 346)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs733574871,2
    C,F--6679515(+) ATTTAG/CCTTGG 1 -- us2k13Minor allele frequency- C:0.22WA CSA 121
    rs1442597981,2
    C--6679600(+) GGCGCG/TCTCCA 1 -- int10--------
    rs1510594881,2
    --6679633(+) TCAGCA/GAACGG 1 -- int10--------
    rs110786491,2
    C,F,A,H--6679644(+) GTAACG/AGGAGA 1 -- int122Minor allele frequency- A:0.37NS EA NA WA 2344
    rs591411721,2
    F--6679657(+) GCGGGC/ACGGAG 1 -- int11Minor allele frequency- A:0.05WA 118
    rs1929102161,2
    --6679703(+) CGGCGA/GGGAGG 1 -- int10--------
    rs1847826181,2
    --6679727(+) TCACCC/TCCTCT 1 -- int10--------
    rs746899281,2
    C,F--6679728(+) CACCCC/GCTCTG 1 -- int11Minor allele frequency- G:0.10EA 120
    rs342333491,2
    C--6679771(+) CAACT-/CCCCCT 1 -- int12Minor allele frequency- C:0.00NA CSA 4
    rs1886115751,2
    --6679822(+) TGGCAA/GCTGTG 1 -- int10--------

    HapMap Linkage Disequilibrium report for FBXO39 (6679542 - 6700420 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for FBXO39:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv907632CNV Loss21882294
    nsv907630CNV Gain21882294

    SABiosciences Cancer Mutation PCR Assays
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    (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.)
    About This Section
    OMIM gene information: 609106    OMIM disorders: --

    2 diseases for FBXO39:    About MalaCards
    colon cancer    


    FBXO39 for disorders           About GeneDecksing


    Export disorders for FBXO39 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)
    About This Section

    PubMed articles for FBXO39 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with FBXO39)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (2002)
    3. Identification of BCP-20 (FBXO39) as a cancer/testis antigen from colon cancer patients by SEREX. (PubMed id 21338577)1 Song M.H....Lee S.Y. (2011)
    4. Systematic analysis and nomenclature of mammalian F-box proteins. (PubMed id 15520277)1 Jin J....Harper J.W. (2004)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     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)
    About This Section
    Entrez Gene: 162517 HGNC: 28565 AceView: FBXO39 Ensembl:ENSG00000177294 euGenes: HUgn162517
    ECgene: FBXO39 H-InvDB: FBXO39

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for FBXO39 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for FBXO39 gene:
    Search GeneIP for patents involving FBXO39

    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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
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    About This Section

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    Category
    (GIFtS: 73)
    transforming growth factor, beta 1
    GIFtS Group
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