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Aliases for RPH3A Gene

Aliases for RPH3A Gene

  • Rabphilin 3A 2 3
  • Exophilin-1 3 4
  • KIAA0985 4 6
  • Rabphilin 3A Homolog (Mouse) 2
  • Rabphilin 3A Homolog 3
  • Rabphilin-3A 3

External Ids for RPH3A Gene

Previous GeneCards Identifiers for RPH3A Gene

  • GC12P112124
  • GC12P112748
  • GC12P113012
  • GC12P111641
  • GC12P111627
  • GC12P111692
  • GC12P113229
  • GC12P110241

Summaries for RPH3A Gene

Entrez Gene Summary for RPH3A Gene

  • Exocytosis of neurotransmitters and hormones is fundamental to synaptic neurotransmission and cell-cell communication. RAB3A (MIM 179390) is a small G protein that is thought to act at late stages of exocytosis, and RPH3A is a RAB3A effector (Lin et al., 2007 [PubMed 17149709]).[supplied by OMIM, Jul 2008]

GeneCards Summary for RPH3A Gene

RPH3A (Rabphilin 3A) is a Protein Coding gene. Diseases associated with RPH3A include synucleinopathy. Among its related pathways are Deregulation of Rab and Rab Effector Genes in Bladder Cancer. GO annotations related to this gene include calcium ion binding and Rab GTPase binding. An important paralog of this gene is SYTL1.

UniProtKB/Swiss-Prot for RPH3A Gene

  • Protein transport. Probably involved with Ras-related protein Rab-3A in synaptic vesicle traffic and/or synaptic vesicle fusion. Could play a role in neurotransmitter release by regulating membrane flow in the nerve terminal (By similarity).

Gene Wiki entry for RPH3A Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RPH3A Gene

Genomics for RPH3A Gene

Regulatory Elements for RPH3A Gene

Genomic Location for RPH3A Gene

112,570,380 bp from pter
112,898,881 bp from pter
328,502 bases
Plus strand

Genomic View for RPH3A Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RPH3A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RPH3A Gene

Proteins for RPH3A Gene

  • Protein details for RPH3A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • B7Z3C3
    • Q96AE0

    Protein attributes for RPH3A Gene

    694 amino acids
    Molecular mass:
    76872 Da
    Quaternary structure:
    • Monomer. Interacts with RAB3A, RAB3B, RAB3C, RAB3D, RAB8A, RAB27A and RAB27B (By similarity).
    • Sequence=BAA76829.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for RPH3A Gene


neXtProt entry for RPH3A Gene

Proteomics data for RPH3A Gene at MOPED

Post-translational modifications for RPH3A Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for RPH3A Gene

Domains for RPH3A Gene

Gene Families for RPH3A Gene

  • SYT :Synaptotagmins

Suggested Antigen Peptide Sequences for RPH3A Gene

Graphical View of Domain Structure for InterPro Entry



  • Q9Y2J0
  • Binds calcium via the C2 domains. The calcium-bound C2 domains mediate interactions with phospholipid bilayers (By similarity).
  • Contains 2 C2 domains.
  • Contains 1 RabBD (Rab-binding) domain.
  • Contains 1 FYVE-type zinc finger.
genes like me logo Genes that share domains with RPH3A: view

Function for RPH3A Gene

Molecular function for RPH3A Gene

UniProtKB/Swiss-Prot Function: Protein transport. Probably involved with Ras-related protein Rab-3A in synaptic vesicle traffic and/or synaptic vesicle fusion. Could play a role in neurotransmitter release by regulating membrane flow in the nerve terminal (By similarity).

Gene Ontology (GO) - Molecular Function for RPH3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005215 transporter activity --
GO:0005509 calcium ion binding ISS --
GO:0005515 protein binding IPI 11377421
GO:0005544 calcium-dependent phospholipid binding ISS --
GO:0005546 phosphatidylinositol-4,5-bisphosphate binding ISS --
genes like me logo Genes that share ontologies with RPH3A: view

Phenotypes for RPH3A Gene

MGI mutant phenotypes for RPH3A:
inferred from 1 alleles
GenomeRNAi human phenotypes for RPH3A:
genes like me logo Genes that share phenotypes with RPH3A: view

Animal Models for RPH3A Gene

MGI Knock Outs for RPH3A:

Animal Model Products

miRNA for RPH3A Gene

miRTarBase miRNAs that target RPH3A

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for RPH3A Gene

Localization for RPH3A Gene

Subcellular locations from UniProtKB/Swiss-Prot for RPH3A Gene

Cell junction, synapse. Membrane; Peripheral membrane protein.

Subcellular locations from

Jensen Localization Image for RPH3A Gene COMPARTMENTS Subcellular localization image for RPH3A gene
Compartment Confidence
cytosol 3
plasma membrane 2

Gene Ontology (GO) - Cellular Components for RPH3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005794 colocalizes_with Golgi apparatus ISS --
GO:0005829 cytosol ISS --
GO:0005886 plasma membrane IBA --
GO:0008021 synaptic vesicle TAS 10099709
GO:0016020 membrane --
genes like me logo Genes that share ontologies with RPH3A: view

Pathways for RPH3A Gene

genes like me logo Genes that share pathways with RPH3A: view

Pathways by source for RPH3A Gene

PCR Array Products

  • Pathway & Disease-focused RT² Profiler PCR Arrays

Gene Ontology (GO) - Biological Process for RPH3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006886 intracellular protein transport IEA --
GO:0006906 vesicle fusion IBA --
GO:0016079 synaptic vesicle exocytosis IBA --
GO:0017158 regulation of calcium ion-dependent exocytosis IBA --
GO:0048791 calcium ion-dependent exocytosis of neurotransmitter IBA --
genes like me logo Genes that share ontologies with RPH3A: view

Compounds for RPH3A Gene

(10) Novoseek inferred chemical compound relationships for RPH3A Gene

Compound -log(P) Hits PubMed IDs
gtp 65.5 12
phospholipid 47.1 14
gdp 44.5 3
phosphatidylserine 30.2 2
calcium 19 9
genes like me logo Genes that share compounds with RPH3A: view

Transcripts for RPH3A Gene

Unigene Clusters for RPH3A Gene

Rabphilin 3A homolog (mouse):
Representative Sequences:

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for RPH3A

Primer Products

  • OriGene qSTAR qPCR primer pairs in human,mouse,rat for RPH3A

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for RPH3A Gene

ExUns: 1a · 1b ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8a · 8b ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14 ^ 15a · 15b ^ 16 ^ 17 ^ 18a · 18b ·
SP1: - - - - - -
SP2: - - - - -
SP3: - -
SP4: - - - - - - - - - - - - - - - - - -
SP5: - -
SP7: -

ExUns: 18c ^ 19 ^ 20 ^ 21a · 21b ^ 22a · 22b ^ 23 ^ 24
SP1: -
SP2: -
SP3: -

Relevant External Links for RPH3A Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for RPH3A Gene

mRNA expression in normal human tissues for RPH3A Gene

mRNA differential expression in normal tissues according to GTEx for RPH3A Gene

This gene is overexpressed in Brain - Cortex (8.9), Brain - Frontal Cortex (BA9) (8.7), Brain - Anterior cingulate cortex (BA24) (7.0), Brain - Cerebellar Hemisphere (4.9), and Brain - Cerebellum (4.3).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for RPH3A Gene

SOURCE GeneReport for Unigene cluster for RPH3A Gene Hs.21239

genes like me logo Genes that share expressions with RPH3A: view

In Situ Assay Products

No data available for mRNA Expression by UniProt/SwissProt for RPH3A Gene

Orthologs for RPH3A Gene

This gene was present in the common ancestor of animals.

Orthologs for RPH3A Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia RPH3A 35
  • 98.69 (n)
  • 98.55 (a)
RPH3A 36
  • 97 (a)
(Bos Taurus)
Mammalia RPH3A 35
  • 90.11 (n)
  • 93.52 (a)
RPH3A 36
  • 92 (a)
(Canis familiaris)
Mammalia RPH3A 35
  • 88.89 (n)
  • 92.51 (a)
RPH3A 36
  • 92 (a)
(Mus musculus)
Mammalia Rph3a 35
  • 83.06 (n)
  • 88.59 (a)
Rph3a 16
Rph3a 36
  • 89 (a)
(Monodelphis domestica)
Mammalia RPH3A 36
  • 82 (a)
(Ornithorhynchus anatinus)
Mammalia RPH3A 36
  • 81 (a)
(Rattus norvegicus)
Mammalia Rph3a 35
  • 83.21 (n)
  • 88.74 (a)
(Gallus gallus)
Aves RPH3A 35
  • 72.16 (n)
  • 75.53 (a)
RPH3A 36
  • 72 (a)
(Anolis carolinensis)
Reptilia RPH3A 36
  • 72 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100487950 35
  • 68.14 (n)
  • 71.99 (a)
(Danio rerio)
Actinopterygii RPH3A (1 of 2) 36
  • 58 (a)
RPH3A (2 of 2) 36
  • 61 (a)
rph3ab 35
  • 68.7 (n)
  • 73.9 (a)
fruit fly
(Drosophila melanogaster)
Insecta Rph 35
  • 53.7 (n)
  • 43.7 (a)
Rph 36
  • 32 (a)
rabphilin-3A 37
  • 39 (a)
(Caenorhabditis elegans)
Secernentea rbf-1 35
  • 53.39 (n)
  • 45.91 (a)
rbf-1 36
  • 23 (a)
Species with no ortholog for RPH3A:
  • 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)
  • 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)

Evolution for RPH3A Gene

Gene Tree for RPH3A (if available)
Gene Tree for RPH3A (if available)

Paralogs for RPH3A Gene

Paralogs for RPH3A Gene Pseudogenes for RPH3A Gene

genes like me logo Genes that share paralogs with RPH3A: view

Variants for RPH3A Gene

Sequence variations from dbSNP and Humsavar for RPH3A Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type MAF
rs12177 -- 112,897,620(+) AAAAC(A/G)ACAGC utr-variant-3-prime
rs733740 -- 112,879,771(-) GTTCA(A/G)TCCTA intron-variant
rs734400 -- 112,795,159(-) GGGAA(A/G)GAGTT intron-variant
rs737216 -- 112,880,454(-) CCCCA(A/T)CTGTA intron-variant
rs739832 -- 112,822,056(-) CCTCA(A/C)ATTGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RPH3A Gene

Variant ID Type Subtype PubMed ID
nsv832515 CNV Gain 17160897
esv2746377 CNV Deletion 23290073
esv987835 CNV Insertion 20482838
esv275176 CNV Gain+Loss 21479260
esv2673292 CNV Deletion 23128226
nsv832516 CNV Gain 17160897

Relevant External Links for RPH3A Gene

HapMap Linkage Disequilibrium report

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RPH3A Gene

Disorders for RPH3A Gene

MalaCards: The human disease database

MalaCards: The human disease database. (1) Diseases for RPH3A Gene including...

Search for RPH3A Gene in MalaCards »

(1) Novoseek inferred disease relationships for RPH3A Gene

Disease -log(P) Hits PubMed IDs
tumors 5.4 1

Relevant External Links for RPH3A

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
genes like me logo Genes that share disorders with RPH3A: view

No data available for UniProtKB/Swiss-Prot for RPH3A Gene

Publications for RPH3A Gene

  1. Prediction of the coding sequences of unidentified human genes. XIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10231032) Nagase T. … Ohara O. (DNA Res. 1999) 2 3 4
  2. Cloning of a mouse Rabphilin-3A expressed in hormone-secreting cells. (PMID: 7822236) Inagaki N. … Seino S. (J. Biochem. 1994) 2 3
  3. Loss of SNAP-25 and rabphilin 3a in sensory-motor cortex in Huntington's disease. (PMID: 17877635) Smith R. … Li J.Y. (J. Neurochem. 2007) 3 23
  4. Abnormal alpha-synuclein interactions with rab3a and rabphilin in diffuse Lewy body disease. (PMID: 15207266) DalfA^ E. … Ferrer I. (Neurobiol. Dis. 2004) 3 23
  5. Distinct Rab binding specificity of Rim1, Rim2, rabphilin, and Noc2. Identification of a critical determinant of Rab3A/Rab27A recognition by Rim2. (PMID: 12578829) Fukuda M. (J. Biol. Chem. 2003) 3 23

Products for RPH3A Gene

Sources for RPH3A Gene

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