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Aliases for CTXN3 Gene

Aliases for CTXN3 Gene

  • Cortexin 3 2 3 5
  • Kidney And Brain-Expressed Protein 3 4
  • KABE 3 4
  • Cortexin-3 3

External Ids for CTXN3 Gene

Previous GeneCards Identifiers for CTXN3 Gene

  • GC05U900493
  • GC05P127013
  • GC05P122176

Summaries for CTXN3 Gene

GeneCards Summary for CTXN3 Gene

CTXN3 (Cortexin 3) is a Protein Coding gene. An important paralog of this gene is CTXN2.

Additional gene information for CTXN3 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CTXN3 Gene

Genomics for CTXN3 Gene

GeneHancer (GH) Regulatory Elements for CTXN3 Gene

Promoters and enhancers for CTXN3 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
GH05I127649 Promoter 0.7 EPDnew 550.8 +0.0 43 0.1 OSR2 SCRT2 CTXN3 LOC105379164
GH05I127653 Promoter 0.6 EPDnew 550.8 +4.0 4014 0.1 JUNB CTXN3 LOC105379164
GH05I127650 Enhancer 0.4 FANTOM5 564.2 +1.4 1355 0.3 SCRT1 SCRT2 ZBTB20 CTXN3 MEGF10 LOC105379164
GH05I127705 Enhancer 1 Ensembl ENCODE 11.2 +56.4 56415 0.9 ZNF529 BMI1 ZNF213 ZNF354C ZNF138 KLF7 FOS ZNF680 ZC3H11A ZNF518A PRRC1 LINC01184 CTXN3 CCDC192 GC05M127785
GH05I127298 Enhancer 0.4 FANTOM5 dbSUPER 2.5 -350.2 -350183 0.2 MEGF10 CTXN3 LOC105379199 ENSG00000249577
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around CTXN3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CTXN3 gene promoter:

Genomic Locations for CTXN3 Gene

Genomic Locations for CTXN3 Gene
9,610 bases
Plus strand

Genomic View for CTXN3 Gene

Genes around CTXN3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CTXN3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CTXN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CTXN3 Gene

Proteins for CTXN3 Gene

  • Protein details for CTXN3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • B2RV32
    • D3DQ82

    Protein attributes for CTXN3 Gene

    81 amino acids
    Molecular mass:
    8933 Da
    Quaternary structure:
    No Data Available

neXtProt entry for CTXN3 Gene

Post-translational modifications for CTXN3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CTXN3 Gene

No data available for DME Specific Peptides for CTXN3 Gene

Domains & Families for CTXN3 Gene

Gene Families for CTXN3 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for CTXN3 Gene


Suggested Antigen Peptide Sequences for CTXN3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the cortexin family.
  • Belongs to the cortexin family.
genes like me logo Genes that share domains with CTXN3: view

Function for CTXN3 Gene

Phenotypes From GWAS Catalog for CTXN3 Gene

Phenotypes for CTXN3 Gene

GenomeRNAi human phenotypes for CTXN3:
genes like me logo Genes that share phenotypes with CTXN3: view

Animal Model Products

CRISPR Products

miRNA for CTXN3 Gene

Inhibitory RNA Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CTXN3 Gene

Localization for CTXN3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CTXN3 Gene

Membrane; Single-pass membrane protein.

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 CTXN3 gene
Compartment Confidence
plasma membrane 3
extracellular 1
cytoskeleton 1
mitochondrion 1
cytosol 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for CTXN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016021 integral component of membrane IEA --
GO:0031224 intrinsic component of membrane IEA --
genes like me logo Genes that share ontologies with CTXN3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CTXN3 Gene

Pathways & Interactions for CTXN3 Gene

SuperPathways for CTXN3 Gene

No Data Available

Interacting Proteins for CTXN3 Gene

Gene Ontology (GO) - Biological Process for CTXN3 Gene


No data available for Pathways by source and SIGNOR curated interactions for CTXN3 Gene

Drugs & Compounds for CTXN3 Gene

No Compound Related Data Available

Transcripts for CTXN3 Gene

mRNA/cDNA for CTXN3 Gene

(2) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(4) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CTXN3 Gene

Cortexin 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for CTXN3 Gene

No ASD Table

Relevant External Links for CTXN3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CTXN3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CTXN3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CTXN3 Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (x11.8), Brain - Cortex (x10.0), Kidney - Cortex (x8.0), Brain - Anterior cingulate cortex (BA24) (x7.2), and Brain - Substantia nigra (x5.1).

NURSA nuclear receptor signaling pathways regulating expression of CTXN3 Gene:


SOURCE GeneReport for Unigene cluster for CTXN3 Gene:


Evidence on tissue expression from TISSUES for CTXN3 Gene

  • Nervous system(4.8)
  • Kidney(4.4)
genes like me logo Genes that share expression patterns with CTXN3: view

Primer Products

No data available for Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CTXN3 Gene

Orthologs for CTXN3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CTXN3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia CTXN3 33 34
  • 97.94 (n)
(Bos Taurus)
Mammalia CTXN3 33 34
  • 89.71 (n)
(Canis familiaris)
Mammalia CTXN3 33 34
  • 89.71 (n)
(Rattus norvegicus)
Mammalia Ctxn3 33
  • 88.75 (n)
(Mus musculus)
Mammalia Ctxn3 33 16 34
  • 87.5 (n)
(Gallus gallus)
Aves CTXN3 34
  • 79 (a)
LOC100859328 33
  • 76.13 (n)
(Anolis carolinensis)
Reptilia CTXN3 34
  • 65 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia ctxn3 33
  • 69.66 (n)
(Danio rerio)
Actinopterygii LOC100331302 33
  • 67.1 (n)
CR396586.1 34
  • 46 (a)
Species where no ortholog for CTXN3 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)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • 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 CTXN3 Gene

Gene Tree for CTXN3 (if available)
Gene Tree for CTXN3 (if available)

Paralogs for CTXN3 Gene

Paralogs for CTXN3 Gene

(2) SIMAP similar genes for CTXN3 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with CTXN3: view

Variants for CTXN3 Gene

Sequence variations from dbSNP and Humsavar for CTXN3 Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs1000031083 -- 127,657,959(+) A/T 3_prime_UTR_variant
rs1000956116 -- 127,650,644(+) T/C genic_upstream_transcript_variant, intron_variant
rs1001042831 -- 127,653,108(+) G/A 5_prime_UTR_variant, intron_variant
rs1001096554 -- 127,652,853(+) T/A genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1001259014 -- 127,658,929(+) C/T downstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for CTXN3 Gene

Variant ID Type Subtype PubMed ID
nsv1033607 CNV gain 25217958
nsv599663 CNV loss 21841781
nsv599664 CNV loss 21841781
nsv830479 CNV gain 17160897
nsv830480 CNV loss 17160897

Variation tolerance for CTXN3 Gene

Residual Variation Intolerance Score: 62.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.73; 78.76% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CTXN3 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 CTXN3 Gene

Disorders for CTXN3 Gene

Additional Disease Information for CTXN3

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for CTXN3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CTXN3 Gene

Publications for CTXN3 Gene

  1. A genome-wide association study of schizophrenia using brain activation as a quantitative phenotype. (PMID: 19023125) Potkin SG … FBIRN (Schizophrenia bulletin 2009) 3 44 58
  2. Association between 5q23.2-located polymorphism of CTXN3 gene (Cortexin 3) and schizophrenia in European-Caucasian males; implications for the aetiology of schizophrenia. (PMID: 25889058) Šerý O … Balcar VJ (Behavioral and brain functions : BBF 2015) 3 58
  3. A genome-wide association meta-analysis of plasma Aβ peptides concentrations in the elderly. (PMID: 24535457) Chouraki V … Lambert JC (Molecular psychiatry 2014) 3 58
  4. Association of CTXN3-SLC12A2 polymorphisms and schizophrenia in a Thai population. (PMID: 22643131) Panichareon B … Sukhumsirichart W (Behavioral and brain functions : BBF 2012) 3 58
  5. A genome-wide association study for blood lipid phenotypes in the Framingham Heart Study. (PMID: 17903299) Kathiresan S … Cupples LA (BMC medical genetics 2007) 44 58

Products for CTXN3 Gene

Sources for CTXN3 Gene

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