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 ... See more...

Aliases for FBXO39 Gene

Aliases for FBXO39 Gene

  • F-Box Protein 39 2 3 5
  • F-Box Only Protein 39 3 4
  • CT144 3
  • Fbx39 3
  • FBX39 4

External Ids for FBXO39 Gene

Previous GeneCards Identifiers for FBXO39 Gene

  • GC17P006881
  • GC17P006620
  • GC17P006679

Summaries for FBXO39 Gene

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 Lymphogranuloma Venereum and Granuloma Inguinale. An important paralog of this gene is FBXO31.

UniProtKB/Swiss-Prot Summary for FBXO39 Gene

  • Substrate-recognition component of the SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex.

Additional gene information for FBXO39 Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for FBXO39 Gene

Genomics for FBXO39 Gene

GeneHancer (GH) Regulatory Elements for FBXO39 Gene

Promoters and enhancers for FBXO39 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH17J006786 Promoter/Enhancer 1.3 EPDnew Ensembl ENCODE 529 +10.8 10840 0.6 SKI FOXA2 FOS SAP130 GABPB1 CREM ZGPAT BCL6 RARA HMG20A FBXO39 piR-51878-013
GH17J006776 Promoter 1 EPDnew Ensembl 508.4 +0.0 25 0.4 HDAC2 EZH2 POLR2A JUND AGO2 SP1 EGR1 SUZ12 FBXO39 PRAL piR-51878-013
GH17J007474 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 10.5 +704.7 704692 13.1 EP300 RXRA HNRNPK FOXK2 ZBTB40 ZNF217 ZSCAN5C TCF12 MYC NRF1 POLR2A ZBTB4 SLC35G6 KIAA0753 DVL2 PFAS ENSG00000265749 SNORD10 SNORA48 KCTD11
GH17J006831 Promoter/Enhancer 1.4 EPDnew Ensembl ENCODE 13 +55.7 55725 1 EP300 NRF1 SAP30 RFX1 U2AF2 FOXA2 EZH2 SIN3A MYNN CREB1 TEKT1 FBXO39 lnc-ALOX12-1
GH17J006853 Promoter/Enhancer 1.5 Ensembl ENCODE CraniofacialAtlas 10.6 +78.3 78287 2.3 ZBTB40 CTCF POLR2G ZFX ZIC2 POLR2A TGIF2 TEAD1 ZKSCAN8 GABPA ALOX12P2 TEKT1 FBXO39 SLC13A5 lnc-TEKT1-3 lnc-ALOX12-1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around FBXO39 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for FBXO39

Top Transcription factor binding sites by QIAGEN in the FBXO39 gene promoter:
  • AML1a
  • AP-1
  • CBF(2)
  • CBF-A
  • CBF-B
  • CP1A
  • NF-Y
  • NF-YA
  • NF-YB
  • Spz1

Genomic Locations for FBXO39 Gene

Genomic Locations for FBXO39 Gene
chr17:6,776,175-6,797,101
(GRCh38/hg38)
Size:
20,927 bases
Orientation:
Plus strand
chr17:6,679,542-6,700,420
(GRCh37/hg19)
Size:
20,879 bases
Orientation:
Plus strand

Genomic View for FBXO39 Gene

Genes around FBXO39 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
FBXO39 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for FBXO39 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for FBXO39 Gene

Proteins for FBXO39 Gene

  • Protein details for FBXO39 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8N4B4-FBX39_HUMAN
    Recommended name:
    F-box only protein 39
    Protein Accession:
    Q8N4B4

    Protein attributes for FBXO39 Gene

    Size:
    442 amino acids
    Molecular mass:
    52646 Da
    Quaternary structure:
    • Directly interacts with SKP1 and CUL1.

neXtProt entry for FBXO39 Gene

Post-translational modifications for FBXO39 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for FBXO39 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for FBXO39 Gene

Domains & Families for FBXO39 Gene

Gene Families for FBXO39 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for FBXO39 Gene

Blocks:
  • Leucine-rich repeat signature
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for FBXO39 Gene

GenScript: Design optimal peptide antigens:
  • F-box only protein 39 (FBX39_HUMAN)
genes like me logo Genes that share domains with FBXO39: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for FBXO39 Gene

Function for FBXO39 Gene

Molecular function for FBXO39 Gene

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

Phenotypes From GWAS Catalog for FBXO39 Gene

genes like me logo Genes that share phenotypes with FBXO39: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for FBXO39

Clone Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for FBXO39 Gene

Localization for FBXO39 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for FBXO39 gene
Compartment Confidence
cytoskeleton 1
mitochondrion 1
nucleus 1
cytosol 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for FBXO39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0019005 SCF ubiquitin ligase complex IBA 21873635
genes like me logo Genes that share ontologies with FBXO39: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from the Human Protein Atlas (HPA) for FBXO39 Gene

Pathways & Interactions for FBXO39 Gene

PathCards logo

SuperPathways for FBXO39 Gene

No Data Available

Gene Ontology (GO) - Biological Process for FBXO39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0031146 SCF-dependent proteasomal ubiquitin-dependent protein catabolic process IBA 21873635
genes like me logo Genes that share ontologies with FBXO39: view

No data available for Pathways by source and SIGNOR curated interactions for FBXO39 Gene

Drugs & Compounds for FBXO39 Gene

No Compound Related Data Available

Transcripts for FBXO39 Gene

mRNA/cDNA for FBXO39 Gene

1 REFSEQ mRNAs :
6 NCBI additional mRNA sequence :
3 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for FBXO39

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for FBXO39 Gene

No ASD Table

Relevant External Links for FBXO39 Gene

GeneLoc Exon Structure for
FBXO39

Expression for FBXO39 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for FBXO39 Gene

mRNA differential expression in normal tissues according to GTEx for FBXO39 Gene

This gene is overexpressed in Testis (x34.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for FBXO39 Gene



Protein tissue co-expression partners for FBXO39 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for FBXO39

SOURCE GeneReport for Unigene cluster for FBXO39 Gene:

Hs.368364

Evidence on tissue expression from TISSUES for FBXO39 Gene

  • Nervous system(4)
genes like me logo Genes that share expression patterns with FBXO39: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for FBXO39 Gene

Orthologs for FBXO39 Gene

This gene was present in the common ancestor of chordates.

Orthologs for FBXO39 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia FBXO39 31 30
  • 99.55 (n)
OneToOne
cow
(Bos Taurus)
Mammalia FBXO39 31 30
  • 88.16 (n)
OneToOne
dog
(Canis familiaris)
Mammalia FBXO39 31 30
  • 84.39 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Fbxo39 30
  • 84.39 (n)
mouse
(Mus musculus)
Mammalia Fbxo39 17 31 30
  • 84.01 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia FBXO39 31
  • 73 (a)
OneToOne
chicken
(Gallus gallus)
Aves FBXO39 31 30
  • 68.65 (n)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 35 (a)
OneToOne
Species where no ortholog for FBXO39 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for FBXO39 Gene

ENSEMBL:
Gene Tree for FBXO39 (if available)
TreeFam:
Gene Tree for FBXO39 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for FBXO39: view image

Paralogs for FBXO39 Gene

Paralogs for FBXO39 Gene

genes like me logo Genes that share paralogs with FBXO39: view

Variants for FBXO39 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for FBXO39 Gene

SNP ID Clinical significance and condition Chr 17 pos Variation AA Info Type
rs1509123 - p.Leu231Phe
rs16956264 - p.Tyr166Cys
rs4143218 - p.Ser221Thr
rs4796555 - p.Pro10Ser
rs7213731 - p.Ile363Met

Additional dbSNP identifiers (rs#s) for FBXO39 Gene

Structural Variations from Database of Genomic Variants (DGV) for FBXO39 Gene

Variant ID Type Subtype PubMed ID
nsv1059072 CNV loss 25217958

Variation tolerance for FBXO39 Gene

Residual Variation Intolerance Score: 82.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 13.86; 95.89% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for FBXO39 Gene

Human Gene Mutation Database (HGMD)
FBXO39
SNPedia medical, phenotypic, and genealogical associations of SNPs for
FBXO39

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for FBXO39 Gene

Disorders for FBXO39 Gene

MalaCards: The human disease database

(3) MalaCards diseases for FBXO39 Gene - From: DISEASES

Disorder Aliases PubMed IDs
lymphogranuloma venereum
  • climatic or tropical bubo
granuloma inguinale
  • donovanosis
epididymis disease
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for FBXO39

genes like me logo Genes that share disorders with FBXO39: view

No data available for UniProtKB/Swiss-Prot and Genatlas for FBXO39 Gene

Publications for FBXO39 Gene

  1. Identification of BCP-20 (FBXO39) as a cancer/testis antigen from colon cancer patients by SEREX. (PMID: 21338577) Song MH … Lee SY (Biochemical and biophysical research communications 2011) 2 3 54
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 54
  3. Prognostic Value of FBXO39 and ETS-1 but not BMI-1 in Iranian Colorectal Cancer Patients (PMID: 29802700) Motalebzadeh J … Mahjoubi F (Asian Pacific journal of cancer prevention : APJCP 2018) 3 54
  4. An atlas of genetic influences on human blood metabolites. (PMID: 24816252) Shin SY … Soranzo N (Nature genetics 2014) 3 54
  5. Expression analysis of two cancer-testis genes, FBXO39 and TDRD4, in breast cancer tissues and cell lines. (PMID: 24377578) Seifi-Alan M … Najafi-Ashtiani M (Asian Pacific journal of cancer prevention : APJCP 2014) 3 54

Products for FBXO39 Gene

Sources for FBXO39 Gene