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Aliases for CYTH3 Gene

Aliases for CYTH3 Gene

  • Cytohesin 3 2 3 5
  • PH, SEC7 And Coiled-Coil Domain-Containing Protein 3 3 4
  • Pleckstrin Homology, Sec7 And Coiled-Coil Domains 3 2 3
  • General Receptor Of Phosphoinositides 1 3 4
  • ARF Nucleotide-Binding Site Opener 3 3 4
  • Cytohesin-3 3 3
  • PSCD3 3 4
  • ARNO3 3 4
  • GRP1 3 4
  • Protein ARNO3 4
  • Grp1 4

External Ids for CYTH3 Gene

Previous HGNC Symbols for CYTH3 Gene

  • PSCD3

Previous GeneCards Identifiers for CYTH3 Gene

  • GC07M006168
  • GC07M006073

Summaries for CYTH3 Gene

Entrez Gene Summary for CYTH3 Gene

  • This gene encodes a member of the PSCD (pleckstrin homology, Sec7 and coiled-coil domains) family. PSCD family members have identical structural organization that consists of an N-terminal coiled-coil motif, a central Sec7 domain, and a C-terminal pleckstrin homology (PH) domain. The coiled-coil motif is involved in homodimerization, the Sec7 domain contains guanine-nucleotide exchange protein (GEP) activity, and the PH domain interacts with phospholipids and is responsible for association of PSCDs with membranes. Members of this family appear to mediate the regulation of protein sorting and membrane trafficking. This encoded protein is involved in the control of Golgi structure and function, and it may have a physiological role in regulating ADP-ribosylation factor protein 6 (ARF) functions, in addition to acting on ARF1. [provided by RefSeq, Jul 2008]

GeneCards Summary for CYTH3 Gene

CYTH3 (Cytohesin 3) is a Protein Coding gene. Among its related pathways are Development Angiotensin activation of ERK and Arf6 signaling events. Gene Ontology (GO) annotations related to this gene include phosphatidylinositol-3,4,5-trisphosphate binding and ARF guanyl-nucleotide exchange factor activity. An important paralog of this gene is CYTH1.

UniProtKB/Swiss-Prot for CYTH3 Gene

  • Promotes guanine-nucleotide exchange on ARF1 and ARF6. Promotes the activation of ARF factors through replacement of GDP with GTP. Play a role in the epithelial polarization (By similarity).

Gene Wiki entry for CYTH3 Gene

Additional gene information for CYTH3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CYTH3 Gene

Genomics for CYTH3 Gene

GeneHancer (GH) Regulatory Elements for CYTH3 Gene

Promoters and enhancers for CYTH3 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
GH07J006270 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 650.7 +0.2 213 3.5 HDGF PKNOX1 ARID4B SIN3A DMAP1 ZNF121 GLIS2 ZNF143 ZNF207 MXD4 CYTH3 GC07P006271 ZNF12 C7orf26 TNRC18 ZNF316 USP42 FAM220A
GH07J006372 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 10.6 -103.3 -103334 6.3 HDGF PKNOX1 CLOCK FOXA2 SMAD1 MLX ARNT ARID4B SIN3A ZNF2 RAC1 ZNF12 ZNF316 C7orf26 USP42 DAGLB CCZ1 CCZ1B ANKRD61 TNRC18
GH07J006317 Enhancer 1 Ensembl ENCODE 19.2 -45.4 -45390 1.5 ARID4B ZNF48 RARA ZNF614 EGR1 HMG20B RXRA SP5 CEBPB NFYC CYTH3 ZNF316 ZNF12 C7orf26 FAM220A USP42 EIF2AK1 RNU6-218P ANKRD61 GC07P006327
GH07J006225 Enhancer 1 Ensembl ENCODE 12.2 +44.7 44748 4.5 HDAC1 TAF9B RB1 ZBTB40 ZNF335 TCF12 EGR1 RCOR1 RUNX3 EGR2 CYTH3 EIF2AK1 GC07M006212 ENSG00000202273 GC07M006227
GH07J006232 Enhancer 0.6 Ensembl ENCODE 12.2 +40.0 39959 1 GABPB1 ETV6 RUNX3 CYTH3 GC07M006212 GC07M006227 ENSG00000202273
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CYTH3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CYTH3 gene promoter:
  • POU2F1c
  • POU2F1b
  • POU2F1a
  • POU2F1
  • MEF-2A
  • aMEF-2
  • Pax-4a
  • MyoD
  • LyF-1

Genomic Locations for CYTH3 Gene

Genomic Locations for CYTH3 Gene
110,869 bases
Minus strand
110,869 bases
Minus strand

Genomic View for CYTH3 Gene

Genes around CYTH3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CYTH3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CYTH3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CYTH3 Gene

Proteins for CYTH3 Gene

  • Protein details for CYTH3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • A4D2N8

    Protein attributes for CYTH3 Gene

    400 amino acids
    Molecular mass:
    46349 Da
    Quaternary structure:
    • Interacts with GRASP (By similarity). Interacts with ARF6 (PubMed:23940353). Interacts with FRMD4A (By similarity). Interacts with FRMD4B (By similarity).

    Three dimensional structures from OCA and Proteopedia for CYTH3 Gene

    Alternative splice isoforms for CYTH3 Gene


neXtProt entry for CYTH3 Gene

Post-translational modifications for CYTH3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CYTH3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for CYTH3 Gene

Domains & Families for CYTH3 Gene

Gene Families for CYTH3 Gene

Protein Domains for CYTH3 Gene

Suggested Antigen Peptide Sequences for CYTH3 Gene

Graphical View of Domain Structure for InterPro Entry



  • Binds via its PH domain to the inositol head group of phosphatidylinositol 3,4,5-trisphosphate.
  • Binds via its PH domain to the inositol head group of phosphatidylinositol 3,4,5-trisphosphate.
  • Autoinhibited by its C-terminal basic region.
genes like me logo Genes that share domains with CYTH3: view

Function for CYTH3 Gene

Molecular function for CYTH3 Gene

UniProtKB/Swiss-Prot Function:
Promotes guanine-nucleotide exchange on ARF1 and ARF6. Promotes the activation of ARF factors through replacement of GDP with GTP. Play a role in the epithelial polarization (By similarity).

Phenotypes From GWAS Catalog for CYTH3 Gene

Gene Ontology (GO) - Molecular Function for CYTH3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005085 guanyl-nucleotide exchange factor activity IEA --
GO:0005086 ARF guanyl-nucleotide exchange factor activity IDA 9707577
GO:0005515 protein binding IPI 16189514
GO:0005547 phosphatidylinositol-3,4,5-trisphosphate binding IDA 9742223
GO:0008289 lipid binding IEA --
genes like me logo Genes that share ontologies with CYTH3: view
genes like me logo Genes that share phenotypes with CYTH3: view

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CYTH3 Gene

Localization for CYTH3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CYTH3 Gene

Cytoplasm, cytosol. Cell membrane; Peripheral membrane protein. Cell junction, adherens junction. Cell junction, tight junction. Note=Translocates from the cytosol to membranes enriched in phosphatidylinositol 3,4,5-trisphosphate. {ECO:0000250 UniProtKB:O08967}.

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 CYTH3 gene
Compartment Confidence
plasma membrane 5
nucleus 5
cytosol 5
golgi apparatus 5
cytoskeleton 1
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (3)
  • Nucleoplasm (1)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CYTH3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane TAS --
GO:0001726 ruffle IEA --
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with CYTH3: view

Pathways & Interactions for CYTH3 Gene

genes like me logo Genes that share pathways with CYTH3: view

Pathways by source for CYTH3 Gene

Gene Ontology (GO) - Biological Process for CYTH3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0032012 regulation of ARF protein signal transduction IEA --
GO:0045785 positive regulation of cell adhesion IEA --
GO:0048193 Golgi vesicle transport IMP 9707577
GO:0065009 regulation of molecular function IEA --
GO:0090162 establishment of epithelial cell polarity ISS --
genes like me logo Genes that share ontologies with CYTH3: view

No data available for SIGNOR curated interactions for CYTH3 Gene

Drugs & Compounds for CYTH3 Gene

(6) Drugs for CYTH3 Gene - From: DrugBank, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
inositol 1,3,4,5-tetrakisphosphate Experimental Pharma Target 0
Inositol-(1,3,4,5,6)-Pentakisphosphate Experimental Pharma Target 0
Guanosine triphosphate Experimental Pharma 0

(7) Additional Compounds for CYTH3 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CYTH3: view

Transcripts for CYTH3 Gene

mRNA/cDNA for CYTH3 Gene

Unigene Clusters for CYTH3 Gene

Cytohesin 3:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CYTH3 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b · 9c · 9d ^ 10a · 10b · 10c ^ 11a · 11b · 11c ^ 12 ^ 13 ^ 14 ^ 15 ^ 16a · 16b ^ 17a · 17b
SP1: - - - - - -
SP2: - - - - - - - - - -
SP3: -
SP4: - - -
SP5: - -
SP6: - -
SP7: -

Relevant External Links for CYTH3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CYTH3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CYTH3 Gene

Protein differential expression in normal tissues from HIPED for CYTH3 Gene

This gene is overexpressed in Frontal cortex (30.6), Placenta (15.3), and Pancreas (10.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CYTH3 Gene

Protein tissue co-expression partners for CYTH3 Gene

NURSA nuclear receptor signaling pathways regulating expression of CYTH3 Gene:


SOURCE GeneReport for Unigene cluster for CYTH3 Gene:


mRNA Expression by UniProt/SwissProt for CYTH3 Gene:

Tissue specificity: Almost absent from liver, thymus and peripheral blood lymphocytes.

Evidence on tissue expression from TISSUES for CYTH3 Gene

  • Nervous system(4.7)
genes like me logo Genes that share expression patterns with CYTH3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for CYTH3 Gene

Orthologs for CYTH3 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for CYTH3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia CYTH3 34 33
  • 99.67 (n)
(Monodelphis domestica)
Mammalia CYTH3 34
  • 96 (a)
(Ornithorhynchus anatinus)
Mammalia CYTH3 34
  • 95 (a)
(Bos Taurus)
Mammalia LOC618488 33
  • 90.28 (n)
CYTH3 34
  • 88 (a)
(Canis familiaris)
Mammalia CYTH3 34 33
  • 88.79 (n)
(Mus musculus)
Mammalia Cyth3 16 34 33
  • 88.05 (n)
(Rattus norvegicus)
Mammalia Cyth3 33
  • 86.97 (n)
(Gallus gallus)
Aves CYTH3 34 33
  • 79.62 (n)
(Anolis carolinensis)
Reptilia CYTH3 34
  • 95 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia cyth3 33
  • 78.46 (n)
(Danio rerio)
Actinopterygii CYTH3 (1 of 3) 34
  • 91 (a)
cyth3a 34
  • 90 (a)
CYTH3 (3 of 3) 34
  • 90 (a)
LOC100537448 33
  • 78.46 (n)
fruit fly
(Drosophila melanogaster)
Insecta step 34
  • 35 (a)
(Caenorhabditis elegans)
Secernentea grp-1 34 33
  • 50.34 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SEC7 34
  • 6 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 62 (a)
CSA.8851 34
  • 61 (a)
Species where no ortholog for CYTH3 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)
  • 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)
  • wheat (Triticum aestivum)

Evolution for CYTH3 Gene

Gene Tree for CYTH3 (if available)
Gene Tree for CYTH3 (if available)
Evolutionary constrained regions (ECRs) for CYTH3: view image

Paralogs for CYTH3 Gene

(9) SIMAP similar genes for CYTH3 Gene using alignment to 3 proteins:

  • B7Z2V9_HUMAN
  • Q96HS5_HUMAN
genes like me logo Genes that share paralogs with CYTH3: view

Variants for CYTH3 Gene

Sequence variations from dbSNP and Humsavar for CYTH3 Gene

SNP ID Clin Chr 07 pos Variation AA Info Type
rs1000053392 -- 6,267,900(-) A/C intron_variant
rs1000062575 -- 6,241,206(-) C/A intron_variant
rs1000080550 -- 6,186,721(-) T/C intron_variant
rs1000114928 -- 6,180,366(-) G/A intron_variant
rs1000148935 -- 6,223,569(-) A/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for CYTH3 Gene

Variant ID Type Subtype PubMed ID
dgv403n21 CNV loss 19592680
esv1914954 OTHER inversion 16254605
esv3302719 CNV tandem duplication 20981092
esv3576286 CNV gain 25503493
esv5723 CNV gain 19470904
esv6554 CNV gain 19470904
esv8077 CNV gain 19470904
esv9687 CNV gain 19470904
nsv1020236 CNV gain 25217958
nsv1020251 CNV loss 25217958
nsv1073634 CNV deletion 25765185
nsv1119106 CNV deletion 24896259
nsv436904 CNV insertion 17901297
nsv522155 CNV loss 19592680
nsv5629 CNV deletion 18451855
nsv7392 OTHER inversion 18451855
nsv818475 CNV loss 17921354
nsv950803 CNV deletion 24416366

Variation tolerance for CYTH3 Gene

Residual Variation Intolerance Score: 14.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.77; 16.17% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CYTH3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CYTH3 Gene

Disorders for CYTH3 Gene

Additional Disease Information for CYTH3

No disorders were found for CYTH3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CYTH3 Gene

Publications for CYTH3 Gene

  1. The Arl4 family of small G proteins can recruit the cytohesin Arf6 exchange factors to the plasma membrane. (PMID: 17398095) Hofmann I … Munro S (Current biology : CB 2007) 3 4 22 58
  2. ARNO3, a Sec7-domain guanine nucleotide exchange factor for ADP ribosylation factor 1, is involved in the control of Golgi structure and function. (PMID: 9707577) Franco M … Chavrier P (Proceedings of the National Academy of Sciences of the United States of America 1998) 3 4 22 58
  3. Nerve growth factor- and epidermal growth factor-stimulated translocation of the ADP-ribosylation factor-exchange factor GRP1 to the plasma membrane of PC12 cells requires activation of phosphatidylinositol 3-kinase and the GRP1 pleckstrin homology domain. (PMID: 9742223) Venkateswarlu K … Cullen PJ (The Biochemical journal 1998) 3 4 22 58
  4. Structural basis for membrane recruitment and allosteric activation of cytohesin family Arf GTPase exchange factors. (PMID: 23940353) Malaby AW … Lambright DG (Proceedings of the National Academy of Sciences of the United States of America 2013) 3 4 58
  5. 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 58

Products for CYTH3 Gene

Sources for CYTH3 Gene

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