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Aliases for ARHGAP39 Gene

Aliases for ARHGAP39 Gene

  • Rho GTPase Activating Protein 39 2 3 5
  • RhoGAP93B Homolog (Drosophila) 2
  • CrossGAP Homolog (Drosophila) 2
  • RhoGAP93B Homolog 3
  • CrossGAP Homolog 3
  • KIAA1688 4
  • CrGAP 3
  • Vilse 3

External Ids for ARHGAP39 Gene

Previous GeneCards Identifiers for ARHGAP39 Gene

  • GC08M145754
  • GC08M140868

Summaries for ARHGAP39 Gene

GeneCards Summary for ARHGAP39 Gene

ARHGAP39 (Rho GTPase Activating Protein 39) is a Protein Coding gene. Among its related pathways are Signaling by GPCR and Signaling by Rho GTPases.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ARHGAP39 Gene

Genomics for ARHGAP39 Gene

Genomic Location for ARHGAP39 Gene

144,529,179 bp from pter
144,700,520 bp from pter
171,342 bases
Minus strand

Genomic View for ARHGAP39 Gene

Genes around ARHGAP39 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ARHGAP39 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ARHGAP39 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ARHGAP39 Gene

No data available for Regulatory Elements for ARHGAP39 Gene

Proteins for ARHGAP39 Gene

  • Protein details for ARHGAP39 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Rho GTPase-activating protein 39
    Protein Accession:
    Secondary Accessions:
    • B4E1I1

    Protein attributes for ARHGAP39 Gene

    1083 amino acids
    Molecular mass:
    121286 Da
    Quaternary structure:
    No Data Available
    • Sequence=BAB21779.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=BAG64793.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for ARHGAP39 Gene


neXtProt entry for ARHGAP39 Gene

Proteomics data for ARHGAP39 Gene at MOPED

Post-translational modifications for ARHGAP39 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ARHGAP39 Gene

Antibody Products

No data available for DME Specific Peptides for ARHGAP39 Gene

Domains & Families for ARHGAP39 Gene

Gene Families for ARHGAP39 Gene

Suggested Antigen Peptide Sequences for ARHGAP39 Gene

Graphical View of Domain Structure for InterPro Entry



  • Contains 1 MyTH4 domain.
  • Contains 1 MyTH4 domain.
  • Contains 1 Rho-GAP domain.
  • Contains 2 WW domains.
genes like me logo Genes that share domains with ARHGAP39: view

Function for ARHGAP39 Gene

genes like me logo Genes that share phenotypes with ARHGAP39: view

Animal Model Products

CRISPR Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ARHGAP39 Gene

Localization for ARHGAP39 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ARHGAP39 Gene

Subcellular locations from

Jensen Localization Image for ARHGAP39 Gene COMPARTMENTS Subcellular localization image for ARHGAP39 gene
Compartment Confidence
cytosol 5
nucleus 5
cytoskeleton 3

No data available for Gene Ontology (GO) - Cellular Components for ARHGAP39 Gene

Pathways & Interactions for ARHGAP39 Gene

genes like me logo Genes that share pathways with ARHGAP39: view

Pathways by source for ARHGAP39 Gene

Interacting Proteins for ARHGAP39 Gene

Gene Ontology (GO) - Biological Process for ARHGAP39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0051056 regulation of small GTPase mediated signal transduction TAS --
genes like me logo Genes that share ontologies with ARHGAP39: view

No data available for SIGNOR curated interactions for ARHGAP39 Gene

Drugs & Compounds for ARHGAP39 Gene

No Compound Related Data Available

Transcripts for ARHGAP39 Gene

Unigene Clusters for ARHGAP39 Gene

Rho GTPase activating protein 39:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for ARHGAP39 Gene

ExUns: 1 ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10
SP1: -

Relevant External Links for ARHGAP39 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ARHGAP39 Gene

mRNA expression in normal human tissues for ARHGAP39 Gene

mRNA differential expression in normal tissues according to GTEx for ARHGAP39 Gene

This gene is overexpressed in Nerve - Tibial (x4.6) and Testis (x4.1).

Protein differential expression in normal tissues from HIPED for ARHGAP39 Gene

This gene is overexpressed in Frontal cortex (23.5), Lung (14.2), Retina (10.0), Fetal Brain (9.7), and Testis (6.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for ARHGAP39 Gene

SOURCE GeneReport for Unigene cluster for ARHGAP39 Gene Hs.148988

genes like me logo Genes that share expression patterns with ARHGAP39: view

Protein tissue co-expression partners for ARHGAP39 Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA Expression by UniProt/SwissProt for ARHGAP39 Gene

Orthologs for ARHGAP39 Gene

This gene was present in the common ancestor of animals.

Orthologs for ARHGAP39 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia ARHGAP39 35
  • 87.22 (n)
  • 88.56 (a)
  • 87 (a)
(Canis familiaris)
Mammalia ARHGAP39 35
  • 86.19 (n)
  • 86.52 (a)
  • 86 (a)
(Mus musculus)
Mammalia Arhgap39 35
  • 84.67 (n)
  • 89.7 (a)
Arhgap39 16
Arhgap39 36
  • 90 (a)
(Pan troglodytes)
Mammalia ARHGAP39 35
  • 98.5 (n)
  • 98.56 (a)
  • 100 (a)
(Rattus norvegicus)
Mammalia Arhgap39 35
  • 84.34 (n)
  • 89.79 (a)
(Monodelphis domestica)
Mammalia ARHGAP39 36
  • 87 (a)
(Ornithorhynchus anatinus)
Mammalia ARHGAP39 36
  • 79 (a)
(Gallus gallus)
Aves ARHGAP39 36
  • 72 (a)
(Anolis carolinensis)
Reptilia ARHGAP39 36
  • 77 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.29319 35
(Danio rerio)
Actinopterygii Dr.27236 35
LOC101884459 35
  • 70.14 (n)
  • 71.37 (a)
arhgap39 36
  • 66 (a)
fruit fly
(Drosophila melanogaster)
Insecta RhoGAP93B 36
  • 29 (a)
(Caenorhabditis elegans)
Secernentea Y92H12BL.4 36
  • 34 (a)
Y92H12BM.1 36
  • 38 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.3354 35
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2763 36
  • 62 (a)
Species with no ortholog for ARHGAP39:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • 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)

Evolution for ARHGAP39 Gene

Gene Tree for ARHGAP39 (if available)
Gene Tree for ARHGAP39 (if available)

Paralogs for ARHGAP39 Gene

(1) SIMAP similar genes for ARHGAP39 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with ARHGAP39: view

No data available for Paralogs for ARHGAP39 Gene

Variants for ARHGAP39 Gene

Sequence variations from dbSNP and Humsavar for ARHGAP39 Gene

SNP ID Clin Chr 08 pos Sequence Context AA Info Type
rs732843 -- 144,544,567(+) AGAGC(G/T)GCTTG intron-variant
rs873789 -- 144,694,333(-) CATTA(C/T)CCAAC intron-variant
rs997258 -- 144,677,692(-) ATTCT(G/T)TTTTT intron-variant
rs2109 -- 144,640,842(+) TAAGC(A/G/T)TCCCA intron-variant
rs2110 -- 144,640,716(+) AAATA(C/G/T)CCATT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for ARHGAP39 Gene

Variant ID Type Subtype PubMed ID
nsv891807 CNV Loss 21882294
nsv428208 CNV Gain 18775914
nsv891846 CNV Loss 21882294
nsv831489 CNV Loss 17160897
dgv7966n71 CNV Loss 21882294
dgv7969n71 CNV Loss 21882294
dgv7975n71 CNV Loss 21882294
dgv7976n71 CNV Loss 21882294
dgv7977n71 CNV Loss 21882294
dgv7978n71 CNV Loss 21882294
nsv891897 CNV Loss 21882294
nsv891912 CNV Loss 21882294
dgv1207n67 CNV Gain 20364138
dgv7984n71 CNV Loss 21882294
nsv522459 CNV Loss 19592680
dgv1294e201 CNV Deletion 23290073
esv23868 CNV Gain+Loss 19812545
esv1009938 CNV Deletion 20482838
esv1114154 CNV Insertion 17803354
esv2738069 CNV Deletion 23290073
dgv1295e201 CNV Deletion 23290073
esv2738072 CNV Deletion 23290073
esv2738075 CNV Deletion 23290073
esv2738076 CNV Deletion 23290073
nsv831490 CNV Loss 17160897
esv28359 CNV Loss 19812545
esv2666702 CNV Deletion 23128226
esv2738077 CNV Deletion 23290073
esv1657415 CNV Insertion 17803354
esv22509 CNV Loss 19812545
esv2674311 CNV Deletion 23128226
nsv891924 CNV Loss 21882294
nsv891925 CNV Loss 21882294
esv2738078 CNV Deletion 23290073
esv23002 CNV Loss 19812545
esv2670099 CNV Deletion 23128226
dgv1296e201 CNV Deletion 23290073
esv2738080 CNV Deletion 23290073
esv2667076 CNV Deletion 23128226
esv2738082 CNV Deletion 23290073
esv2738083 CNV Deletion 23290073
dgv1297e201 CNV Deletion 23290073
esv2738086 CNV Deletion 23290073
esv2738088 CNV Deletion 23290073

Variation tolerance for ARHGAP39 Gene

Residual Variation Intolerance Score: 6.25% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.07; 50.69% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ARHGAP39 Gene

HapMap Linkage Disequilibrium report

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ARHGAP39 Gene

Disorders for ARHGAP39 Gene

Relevant External Links for ARHGAP39

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for ARHGAP39 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ARHGAP39 Gene

Publications for ARHGAP39 Gene

  1. Cross GTPase-activating protein (CrossGAP)/Vilse links the Roundabout receptor to Rac to regulate midline repulsion. (PMID: 15755809) Hu H. … Bashaw G.J. (Proc. Natl. Acad. Sci. U.S.A. 2005) 2 3 67
  2. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  3. Genome-wide association study of smoking behaviours among Bangladeshi adults. (PMID: 24665060) Argos M. … Ahsan H. (J. Med. Genet. 2014) 3
  4. Common genetic variants associated with cognitive performance identified using the proxy-phenotype method. (PMID: 25201988) Rietveld C.A. … Koellinger P.D. (Proc. Natl. Acad. Sci. U.S.A. 2014) 3
  5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K. … Sugano S. (Genome Res. 2006) 3

Products for ARHGAP39 Gene

Sources for ARHGAP39 Gene

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