Free for academic non-profit institutions. Other users need a Commercial license

Aliases for ARHGEF39 Gene

Aliases for ARHGEF39 Gene

  • Rho Guanine Nucleotide Exchange Factor 39 2 3 5
  • Rho Guanine Nucleotide Exchange Factor (GEF) 39 2 3
  • C9orf100 3 4
  • Chromosome 9 Open Reading Frame 100 2
  • Vav-Like Protein C9orf100 3

External Ids for ARHGEF39 Gene

Previous HGNC Symbols for ARHGEF39 Gene

  • C9orf100

Summaries for ARHGEF39 Gene

GeneCards Summary for ARHGEF39 Gene

ARHGEF39 (Rho Guanine Nucleotide Exchange Factor 39) is a Protein Coding gene. Among its related pathways are p75 NTR receptor-mediated signalling and Signaling by GPCR. Gene Ontology (GO) annotations related to this gene include Rho guanyl-nucleotide exchange factor activity.

UniProtKB/Swiss-Prot for ARHGEF39 Gene

  • Promotes cell proliferation.

Additional gene information for ARHGEF39 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ARHGEF39 Gene

Genomics for ARHGEF39 Gene

GeneHancer (GH) Regulatory Elements for ARHGEF39 Gene

Promoters and enhancers for ARHGEF39 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH09I035656 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 577.9 +14.9 14901 9.9 CLOCK MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ARHGEF39 CCDC107 NPR2 RGP1 PIGO RECK VCP ENSG00000230074 UNC13B CA9
GH09I035672 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE 556.3 +1.1 1072 3.9 CTCF MXI1 USF1 FOXA2 SAP130 MAX DMAP1 ZNF48 TEAD3 POLR2A CA9 ARHGEF39 CCDC107
GH09I035726 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 22.1 -54.5 -54549 8.6 YBX1 DMAP1 IRF4 YY1 SLC30A9 E2F8 ZNF143 SP3 NFYC MEF2D TLN1 CREB3 TMEM8B GBA2 ARHGEF39 TPM2 HMGB3P24 PIGO RN7SL22P ENSG00000228843
GH09I035644 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 17.2 +27.0 27011 9 HDGF PKNOX1 FOXA2 ARID4B SIN3A ZNF2 IRF4 YY1 ZNF213 ZNF207 CD72 SIT1 ARHGEF39 TMEM8B CCDC107 CA9 IL11RA LOC101926948
GH09I035913 Enhancer 1.4 Ensembl ENCODE dbSUPER 23.3 -241.4 -241376 7.7 HDGF ARNT ARID4B NEUROD1 YBX1 ZBTB7B YY1 ZNF766 ZNF207 MCM3 PIGO ARHGEF39 RGP1 TLN1 ENSG00000231393 GBA2 SPAAR CLTA RECK NDUFA5P4
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around ARHGEF39 on UCSC Golden Path with GeneCards custom track

Genomic Locations for ARHGEF39 Gene

Genomic Locations for ARHGEF39 Gene
16,992 bases
Minus strand

Genomic View for ARHGEF39 Gene

Genes around ARHGEF39 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ARHGEF39 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ARHGEF39 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ARHGEF39 Gene

Proteins for ARHGEF39 Gene

  • Protein details for ARHGEF39 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Rho guanine nucleotide exchange factor 39
    Protein Accession:
    Secondary Accessions:
    • Q49AG0
    • Q6TPQ2
    • Q96ST6

    Protein attributes for ARHGEF39 Gene

    335 amino acids
    Molecular mass:
    38295 Da
    Quaternary structure:
    No Data Available
    • Sequence=AAR01010.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=AAR01011.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for ARHGEF39 Gene


neXtProt entry for ARHGEF39 Gene

Post-translational modifications for ARHGEF39 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ARHGEF39 Gene

No data available for DME Specific Peptides for ARHGEF39 Gene

Domains & Families for ARHGEF39 Gene

Gene Families for ARHGEF39 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for ARHGEF39 Gene

Suggested Antigen Peptide Sequences for ARHGEF39 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with ARHGEF39: view

No data available for UniProtKB/Swiss-Prot for ARHGEF39 Gene

Function for ARHGEF39 Gene

Molecular function for ARHGEF39 Gene

UniProtKB/Swiss-Prot Function:
Promotes cell proliferation.

Phenotypes From GWAS Catalog for ARHGEF39 Gene

Gene Ontology (GO) - Molecular Function for ARHGEF39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005089 Rho guanyl-nucleotide exchange factor activity IEA --
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with ARHGEF39: view
genes like me logo Genes that share phenotypes with ARHGEF39: view

Animal Model Products

CRISPR Products

miRNA for ARHGEF39 Gene

miRTarBase miRNAs that target ARHGEF39

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ARHGEF39 Gene

Localization for ARHGEF39 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ARHGEF39 Gene

Cell membrane.

Subcellular locations from

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 ARHGEF39 gene
Compartment Confidence
plasma membrane 5
nucleus 2
cytosol 2
extracellular 1

Gene Ontology (GO) - Cellular Components for ARHGEF39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA,IDA 22327280
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with ARHGEF39: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for ARHGEF39 Gene

Pathways & Interactions for ARHGEF39 Gene

genes like me logo Genes that share pathways with ARHGEF39: view

Interacting Proteins for ARHGEF39 Gene

Gene Ontology (GO) - Biological Process for ARHGEF39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030335 positive regulation of cell migration IDA 22327280
GO:0035023 regulation of Rho protein signal transduction IEA --
GO:0065009 regulation of molecular function IEA --
genes like me logo Genes that share ontologies with ARHGEF39: view

No data available for SIGNOR curated interactions for ARHGEF39 Gene

Drugs & Compounds for ARHGEF39 Gene

(3) Drugs for ARHGEF39 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Guanosine diphosphate Experimental Pharma 0
Guanosine monophosphate Experimental Pharma 0
Guanosine triphosphate Experimental Pharma 0
genes like me logo Genes that share compounds with ARHGEF39: view

Transcripts for ARHGEF39 Gene

Unigene Clusters for ARHGEF39 Gene

Rho guanine nucleotide exchange factor (GEF) 39:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for ARHGEF39 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7 ^ 8a · 8b ^ 9 ^ 10a · 10b
SP1: - -
SP2: - -
SP3: - - - - -
SP4: -
SP5: - - - - -
SP7: -

Relevant External Links for ARHGEF39 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ARHGEF39 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ARHGEF39 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for ARHGEF39 Gene

This gene is overexpressed in Frontal cortex (44.6), NK cells (13.8), and Fetal gut (6.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for ARHGEF39 Gene

NURSA nuclear receptor signaling pathways regulating expression of ARHGEF39 Gene:


SOURCE GeneReport for Unigene cluster for ARHGEF39 Gene:


mRNA Expression by UniProt/SwissProt for ARHGEF39 Gene:

Tissue specificity: Strongly expressed in hepatocellular carcinoma (HCC) compared with their non-cancerous counterparts.

Evidence on tissue expression from TISSUES for ARHGEF39 Gene

  • Blood(4)
genes like me logo Genes that share expression patterns with ARHGEF39: view

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for ARHGEF39 Gene

Orthologs for ARHGEF39 Gene

This gene was present in the common ancestor of animals.

Orthologs for ARHGEF39 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ARHGEF39 33 34
  • 99.7 (n)
(Bos Taurus)
Mammalia ARHGEF39 33 34
  • 88.96 (n)
(Canis familiaris)
Mammalia ARHGEF39 33 34
  • 87.66 (n)
(Rattus norvegicus)
Mammalia Arhgef39 33
  • 86.81 (n)
(Mus musculus)
Mammalia Arhgef39 33 16 34
  • 85.47 (n)
(Monodelphis domestica)
Mammalia ARHGEF39 34
  • 74 (a)
(Ornithorhynchus anatinus)
Mammalia ARHGEF39 34
  • 67 (a)
(Gallus gallus)
Aves CZH9ORF100 33 34
  • 61.22 (n)
(Anolis carolinensis)
Reptilia ARHGEF39 34
  • 48 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100485947 33
  • 52.56 (n)
(Danio rerio)
Actinopterygii arhgef39 33 34
  • 56.79 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011707 33
  • 43.62 (n)
fruit fly
(Drosophila melanogaster)
Insecta RhoGEF4 33
  • 43.62 (n)
Species where no ortholog for ARHGEF39 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for ARHGEF39 Gene

Gene Tree for ARHGEF39 (if available)
Gene Tree for ARHGEF39 (if available)

Paralogs for ARHGEF39 Gene

No data available for Paralogs for ARHGEF39 Gene

Variants for ARHGEF39 Gene

Sequence variations from dbSNP and Humsavar for ARHGEF39 Gene

SNP ID Clin Chr 09 pos Variation AA Info Type
rs1000308916 -- 35,661,853(-) G/A 3_prime_UTR_variant, genic_downstream_transcript_variant, non_coding_transcript_variant
rs1000462230 -- 35,662,211(-) T/A coding_sequence_variant, downstream_transcript_variant, genic_downstream_transcript_variant, missense_variant, non_coding_transcript_variant, synonymous_variant
rs1000727643 -- 35,661,483(-) A/T 3_prime_UTR_variant, genic_downstream_transcript_variant, intron_variant, non_coding_transcript_variant
rs1000968517 -- 35,666,862(-) G/A upstream_transcript_variant
rs1001076608 -- 35,661,759(-) C/G 3_prime_UTR_variant, genic_downstream_transcript_variant, non_coding_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for ARHGEF39 Gene

Variant ID Type Subtype PubMed ID
esv2665709 CNV deletion 23128226
esv3544805 CNV deletion 23714750
esv3620382 CNV loss 21293372
nsv1125318 OTHER inversion 24896259
nsv466385 CNV loss 19166990
nsv614166 CNV loss 21841781

Variation tolerance for ARHGEF39 Gene

Residual Variation Intolerance Score: 82.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 9.42; 88.57% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ARHGEF39 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ARHGEF39 Gene

Disorders for ARHGEF39 Gene

Additional Disease Information for ARHGEF39

No disorders were found for ARHGEF39 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ARHGEF39 Gene

Publications for ARHGEF39 Gene

  1. C9orf100, a new member of the Dbl-family guanine nucleotide exchange factors, promotes cell proliferation and migration in hepatocellular carcinoma. (PMID: 22327280) Wang H … Cai B (Molecular medicine reports 2012) 2 3 4 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  4. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T … Vidal M (Cell 2014) 3 58
  5. Next-generation sequencing to generate interactome datasets. (PMID: 21516116) Yu H … Vidal M (Nature methods 2011) 3 58

Products for ARHGEF39 Gene

Sources for ARHGEF39 Gene

Loading form....