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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 Signaling by GPCR. GO annotations related to this gene include Rho guanyl-nucleotide exchange factor activity.

UniProtKB/Swiss-Prot for ARHGEF39 Gene

  • Promotes cell proliferation.

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
GH09G035656 1.7 Ensembl ENCODE dbSUPER 17.6 +14.9 14901 9.9 CREB3L1 MLX AGO1 ZFP64 DMAP1 FEZF1 YY1 SLC30A9 ZNF143 ZNF263 PIGO ARHGEF39 RGP1 CCDC107 CA9 TPM2 CD72 TLN1 RN7SL22P
GH09G035644 1.6 Ensembl ENCODE dbSUPER 17.2 +27.0 27012 9.0 HNRNPUL1 HDGF PKNOX1 FOXA2 CREB3L1 ARID4B SIN3A ZNF2 YY1 ZNF207 ARHGEF39 CD72 TMEM8B CCDC107 CA9 IL11RA SIT1
GH09G035634 1.3 Ensembl ENCODE dbSUPER 18.3 +38.6 38632 6.1 HDGF BACH1 BMI1 CEBPG EGR1 EED RELB IKZF2 MTA2 CBFB ARHGEF39 CA9 CCDC107 CD72 RN7SL22P GBA2 RGP1 MSMP ENSG00000228843 VCP
GH09G035726 1.7 FANTOM5 ENCODE dbSUPER 11.6 -54.5 -54549 8.6 CREB3L1 MLX AGO1 DMAP1 YBX1 YY1 SLC30A9 ZNF143 ZNF263 SP3 TMEM8B GBA2 TPM2 TLN1 ARHGEF39 RN7SL22P ENSG00000228843 MSMP CCDC107 CA9
GH09G035602 1.6 FANTOM5 ENCODE 11.2 +71.2 71229 3.6 HDGF PKNOX1 CREB3L1 MLX ZFP64 ARID4B SIN3A DMAP1 FEZF1 ZNF2 CD72 ENSG00000231393 LOC101926948 CCDC107 RN7SL22P ARHGEF39 RUSC2 TMEM8B SPAG8 FAM221B
- 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 CTCF PHF8 HDAC2 RNF2 POLR2A NRF1

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

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 Gene Families and UniProtKB/Swiss-Prot for ARHGEF39 Gene

Function for ARHGEF39 Gene

Molecular function for ARHGEF39 Gene

UniProtKB/Swiss-Prot Function:
Promotes cell proliferation.

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

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

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

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 35 34
  • 99.7 (n)
OneToOne
cow
(Bos Taurus)
Mammalia ARHGEF39 35 34
  • 88.96 (n)
OneToOne
dog
(Canis familiaris)
Mammalia ARHGEF39 35 34
  • 87.66 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Arhgef39 34
  • 86.81 (n)
mouse
(Mus musculus)
Mammalia Arhgef39 35 16 34
  • 85.47 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia ARHGEF39 35
  • 74 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia ARHGEF39 35
  • 67 (a)
OneToOne
chicken
(Gallus gallus)
Aves CZH9ORF100 35 34
  • 61.22 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia ARHGEF39 35
  • 48 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100485947 34
  • 52.56 (n)
zebrafish
(Danio rerio)
Actinopterygii arhgef39 35 34
  • 56.79 (n)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta RhoGEF4 34
  • 43.62 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011707 34
  • 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. (Mol. Med. Report. 2012) 2 3 4 64
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  3. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3 64
  4. Next-generation sequencing to generate interactome datasets. (PMID: 21516116) Yu H. … Vidal M. (Nat. Methods 2011) 3 64
  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 64

Products for ARHGEF39 Gene

Sources for ARHGEF39 Gene

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