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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 RET signaling. 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

Regulatory Elements for ARHGEF39 Gene

Enhancers for ARHGEF39 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH09H035726 1.7 FANTOM5 ENCODE dbSUPER 30.6 -54.5 -54549 8 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A YBX1 DMAP1 ZBTB7B YY1 TPM2 TMEM8B ARHGEF39 GBA2 CCDC107 TLN1 HMGB3P24 PIGO RN7SL22P ENSG00000228843
GH09H035656 1.7 Ensembl ENCODE dbSUPER 27.2 +14.9 14901 9 MLX ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC SSRP1 ARHGEF39 VCP RGP1 C9orf131 PIGO RN7SL22P NPR2 YBX1P10 RECK ENSG00000230074
GH09H035913 1.5 Ensembl ENCODE dbSUPER 23.3 -241.4 -241376 7 HDGF ATF1 ARNT ARID4B YBX1 ZBTB7B YY1 TCF12 ZNF766 ELK1 PIGO ARHGEF39 RGP1 TLN1 GBA2 SPAAR CLTA RECK NDUFA5P4 OR13J1
GH09H034987 1.6 FANTOM5 ENCODE dbSUPER 19.9 +682.6 682587 10 HDGF PKNOX1 ARID4B SIN3A YY1 ZNF207 ZNF143 FOS DEK SP3 VCP UBAP2 ARHGEF39 TPM2 FANCG CCDC107 TLN1 YBX1P10 PIGO FAM205A
GH09H035644 1.6 Ensembl ENCODE dbSUPER 17.2 +27.0 27012 9 HDGF PKNOX1 FOXA2 ARID4B SIN3A ZNF2 YY1 ZNF207 ZNF143 FOS ARHGEF39 CD72 TMEM8B CCDC107 CA9 IL11RA SIT1
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around ARHGEF39 on UCSC Golden Path with GeneCards custom track

Promoters for ARHGEF39 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000234668 66 401 POLR2A

Genomic Location for ARHGEF39 Gene

Chromosome:
9
Start:
35,658,875 bp from pter
End:
35,675,866 bp from pter
Size:
16,992 bases
Orientation:
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:
    Q8N4T4-ARG39_HUMAN
    Recommended name:
    Rho guanine nucleotide exchange factor 39
    Protein Accession:
    Q8N4T4
    Secondary Accessions:
    • Q49AG0
    • Q6TPQ2
    • Q96ST6

    Protein attributes for ARHGEF39 Gene

    Size:
    335 amino acids
    Molecular mass:
    38295 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • 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

    UniProtKB/Swiss-Prot:

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

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for ARHGEF39
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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

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 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:0043547 positive regulation of GTPase activity 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

Clone Products

  • Applied Biological Materials Clones for ARHGEF39
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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: - - - - -
SP6:
SP7: -

Relevant External Links for ARHGEF39 Gene

GeneLoc Exon Structure for
ARHGEF39
ECgene alternative splicing isoforms for
ARHGEF39

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:

ARHGEF39

SOURCE GeneReport for Unigene cluster for ARHGEF39 Gene:

Hs.534579

mRNA Expression by UniProt/SwissProt for ARHGEF39 Gene:

Q8N4T4-ARG39_HUMAN
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

Primer Products

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
chimpanzee
(Pan troglodytes)
Mammalia ARHGEF39 33 34
  • 99.7 (n)
cow
(Bos Taurus)
Mammalia ARHGEF39 33 34
  • 88.96 (n)
dog
(Canis familiaris)
Mammalia ARHGEF39 33 34
  • 87.66 (n)
rat
(Rattus norvegicus)
Mammalia Arhgef39 33
  • 86.81 (n)
mouse
(Mus musculus)
Mammalia Arhgef39 33 16 34
  • 85.47 (n)
oppossum
(Monodelphis domestica)
Mammalia ARHGEF39 34
  • 74 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia ARHGEF39 34
  • 67 (a)
OneToOne
chicken
(Gallus gallus)
Aves CZH9ORF100 33 34
  • 61.22 (n)
lizard
(Anolis carolinensis)
Reptilia ARHGEF39 34
  • 48 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100485947 33
  • 52.56 (n)
zebrafish
(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

ENSEMBL:
Gene Tree for ARHGEF39 (if available)
TreeFam:
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 Sequence Context AA Info Type
rs1000308916 -- 35,661,853(+) AGCTT(A/G)GTCCA nc-transcript-variant, downstream-variant-500B, utr-variant-3-prime
rs1000462230 -- 35,662,211(+) CAGCG(A/T)GACAG nc-transcript-variant, downstream-variant-500B, reference, synonymous-codon, missense
rs1000727643 -- 35,661,483(+) AAATA(A/T)ATGAT intron-variant, nc-transcript-variant, downstream-variant-500B, utr-variant-3-prime
rs1000968517 -- 35,666,862(+) CAGGA(A/G)GAGGT upstream-variant-2KB
rs1001076608 -- 35,661,759(+) TCCTG(C/G)CACCT nc-transcript-variant, downstream-variant-500B, utr-variant-3-prime

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)

Relevant External Links for ARHGEF39 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ARHGEF39

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

Disorders for ARHGEF39 Gene

Relevant External Links for ARHGEF39

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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 60
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 60
  4. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T … Vidal M (Cell 2014) 3 60
  5. Next-generation sequencing to generate interactome datasets. (PMID: 21516116) Yu H … Vidal M (Nature methods 2011) 3 60

Products for ARHGEF39 Gene

Sources for ARHGEF39 Gene

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