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Aliases for CTXN1 Gene

Aliases for CTXN1 Gene

  • Cortexin 1 2 3 5
  • Cortexin-1 3 4
  • CTXN 3 4

External Ids for CTXN1 Gene

Previous GeneCards Identifiers for CTXN1 Gene

  • GC19U900430
  • GC19M007896
  • GC19M007898
  • GC19M007989
  • GC19M007660

Summaries for CTXN1 Gene

GeneCards Summary for CTXN1 Gene

CTXN1 (Cortexin 1) is a Protein Coding gene. An important paralog of this gene is CTXN3.

UniProtKB/Swiss-Prot for CTXN1 Gene

  • May mediate extracellular or intracellular signaling of cortical neurons during forebrain development.

Additional gene information for CTXN1 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 CTXN1 Gene

Genomics for CTXN1 Gene

GeneHancer (GH) Regulatory Elements for CTXN1 Gene

Promoters and enhancers for CTXN1 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
GH19J007924 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 600.7 -1.7 -1674 6.5 ELF3 CTCF ZKSCAN8 MNT ZNF148 ZNF687 AHR TFE3 SP7 KLF14 ENSG00000269139 CTXN1 TIMM44 ENSG00000267939
GH19J007896 Enhancer 1 Ensembl ENCODE 12.3 +28.6 28597 1.3 ZNF121 CEBPG SP1 ZNF384 KAT8 CEBPA GATAD2A RXRB RCOR2 IRF2 PRR36 CTXN1 LRRC8E GC19M007891 GC19M007902
GH19J007894 Enhancer 0.9 Ensembl ENCODE 11.8 +31.5 31466 2.6 MLLT1 ZNF384 GLIS2 KLF9 ZFX RFX1 POLR2A FOS FOSL1 DPF2 CTXN1 GC19M007891 LRRC8E GC19M007902
GH19J007842 Enhancer 0.8 FANTOM5 dbSUPER 1.3 +83.4 83427 0.5 ZSCAN4 MNT ZNF157 ZNF18 STAT5A PLRG1 CBLL2 INSM2 ZNF785 ELAVL1 LRRC8E EVI5L FBN3 PNPLA6 CAMSAP3 CERS4 CTXN1 ENSG00000268120
GH19J007941 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 0.4 -17.2 -17235 3.2 HDGF SP1 CC2D1A ELF3 ZFX CTCF MNT NKRF POLR2A ZNF121 TIMM44 ENSG00000286138 ZNF557 ELAVL1 HNRNPM XAB2 ZNF558 ZNF414 CTXN1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CTXN1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CTXN1 gene promoter:
  • aMEF-2
  • Lmo2
  • MEF-2A
  • NRSF form 1
  • NRSF form 2
  • Pax-5
  • POU3F2 (N-Oct-5a)
  • POU3F2 (N-Oct-5b)
  • SRY
  • STAT5A

Genomic Locations for CTXN1 Gene

Genomic Locations for CTXN1 Gene
1,676 bases
Minus strand
1,680 bases
Minus strand

Genomic View for CTXN1 Gene

Genes around CTXN1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CTXN1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CTXN1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CTXN1 Gene

Proteins for CTXN1 Gene

  • Protein details for CTXN1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:

    Protein attributes for CTXN1 Gene

    82 amino acids
    Molecular mass:
    9045 Da
    Quaternary structure:
    No Data Available

neXtProt entry for CTXN1 Gene

Post-translational modifications for CTXN1 Gene

  • Ubiquitination at posLast=6969
  • Modification sites at PhosphoSitePlus

Other Protein References for CTXN1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for CTXN1 Gene

Domains & Families for CTXN1 Gene

Gene Families for CTXN1 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for CTXN1 Gene


Suggested Antigen Peptide Sequences for CTXN1 Gene

GenScript: Design optimal peptide antigens:
  • Cortexin-1 (CTXN1_HUMAN)

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 CTXN1: view

Function for CTXN1 Gene

Molecular function for CTXN1 Gene

UniProtKB/Swiss-Prot Function:
May mediate extracellular or intracellular signaling of cortical neurons during forebrain development.
genes like me logo Genes that share phenotypes with CTXN1: view

Animal Model Products

  • Taconic Biosciences Mouse Models for CTXN1

CRISPR Products

miRNA for CTXN1 Gene

miRTarBase miRNAs that target CTXN1

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CTXN1

Clone Products

  • Applied Biological Materials (abm): Clones for CTXN1 - Now 50% OFF >
  • * CTXN1 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * CTXN1 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CTXN1 Gene

Localization for CTXN1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CTXN1 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 CTXN1 gene
Compartment Confidence
plasma membrane 2
extracellular 1
nucleus 1
cytosol 1
golgi apparatus 1
mitochondrion 0

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cell Junctions (2)
  • Nucleoplasm (2)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CTXN1 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 CTXN1: view

Pathways & Interactions for CTXN1 Gene

PathCards logo

SuperPathways for CTXN1 Gene

No Data Available

Interacting Proteins for CTXN1 Gene

Gene Ontology (GO) - Biological Process for CTXN1 Gene


No data available for Pathways by source and SIGNOR curated interactions for CTXN1 Gene

Drugs & Compounds for CTXN1 Gene

(1) Additional Compounds for CTXN1 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CTXN1: view

Transcripts for CTXN1 Gene

mRNA/cDNA for CTXN1 Gene

(1) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(355) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Unigene Clusters for CTXN1 Gene

Cortexin 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CTXN1

Clone Products

  • Applied Biological Materials (abm): Clones for CTXN1 - Now 50% OFF >
  • * CTXN1 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * CTXN1 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

Alternative Splicing Database (ASD) splice patterns (SP) for CTXN1 Gene

No ASD Table

Relevant External Links for CTXN1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CTXN1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CTXN1 Gene

mRNA differential expression in normal tissues according to GTEx for CTXN1 Gene

This gene is overexpressed in Brain - Nucleus accumbens (basal ganglia) (x7.6), Brain - Putamen (basal ganglia) (x7.4), Brain - Caudate (basal ganglia) (x6.6), Brain - Hippocampus (x4.7), and Brain - Amygdala (x4.2).

Protein differential expression in normal tissues from HIPED for CTXN1 Gene

This gene is overexpressed in Adipocyte (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for CTXN1 Gene

Protein tissue co-expression partners for CTXN1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CTXN1 Gene:


SOURCE GeneReport for Unigene cluster for CTXN1 Gene:


Evidence on tissue expression from TISSUES for CTXN1 Gene

  • Nervous system(4.5)
genes like me logo Genes that share expression patterns with CTXN1: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CTXN1 Gene

Orthologs for CTXN1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CTXN1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia CTXN1 35 34
  • 100 (n)
(Canis familiaris)
Mammalia CTXN1 35 34
  • 96.75 (n)
(Bos Taurus)
Mammalia CTXN1 35 34
  • 94.72 (n)
(Mus musculus)
Mammalia Ctxn1 17 35 34
  • 93.09 (n)
(Rattus norvegicus)
Mammalia Ctxn1 34
  • 91.87 (n)
(Ornithorhynchus anatinus)
Mammalia CTXN1 35
  • 78 (a)
(Gallus gallus)
Aves CTXN1 35
  • 70 (a)
(Danio rerio)
Actinopterygii CTXN1 (2 of 2) 35
  • 61 (a)
CTXN1 (1 of 2) 35
  • 54 (a)
Species where no ortholog for CTXN1 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CTXN1 Gene

Gene Tree for CTXN1 (if available)
Gene Tree for CTXN1 (if available)
Evolutionary constrained regions (ECRs) for CTXN1: view image

Paralogs for CTXN1 Gene

Paralogs for CTXN1 Gene

(2) SIMAP similar genes for CTXN1 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with CTXN1: view

Variants for CTXN1 Gene

Sequence variations from dbSNP and Humsavar for CTXN1 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs11542187 benign, likely-benign, not specified, not provided 7,928,091(-) T/C upstream_transcript_variant
rs11542188 benign, not specified, not provided 7,927,241(-) G/A/C upstream_transcript_variant
rs34425383 benign, not specified, not provided 7,928,074(-) T/C upstream_transcript_variant
rs138385134 likely-benign, not specified 7,927,274(-) C/G/T upstream_transcript_variant
rs143337629 uncertain-significance, not specified 7,927,239(-) G/A upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for CTXN1 Gene

Variant ID Type Subtype PubMed ID
nsv1072318 CNV deletion 25765185
nsv1136274 CNV deletion 24896259
nsv833733 CNV gain 17160897
nsv953961 CNV deletion 24416366

Variation tolerance for CTXN1 Gene

Residual Variation Intolerance Score: 49% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.34; 7.59% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CTXN1 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 CTXN1 Gene

Disorders for CTXN1 Gene

Additional Disease Information for CTXN1

No disorders were found for CTXN1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CTXN1 Gene

Publications for CTXN1 Gene

  1. 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
  2. Cortexin and combination of nitrite with cortexin decrease swelling and destruction of cerebellar neurons in hemorrhagic stroke. (PMID: 19650315) Reutov VP … Chailakhyan LM (Doklady biological sciences : proceedings of the Academy of Sciences of the USSR, Biological sciences sections 2009) 23 58
  3. [Use of cortexin in the early rehabilitation period of ischemic stroke of moderate severity]. (PMID: 19672239) Nurguzhaev ES … Abdil'manova BR (Zhurnal nevrologii i psikhiatrii imeni S.S. Korsakova 2009) 23 58
  4. [Cytoprotective effect of neuropeptides on immunocompetent cells (in vitro study)]. (PMID: 19803367) Garmanchuk LV … Kul'chikov AE (Eksperimental'naia i klinicheskaia farmakologiia 2009) 23 58
  5. Purification and mechanism of action of "cortexin," a novel antihypertensive protein hormone from kidney and its role in essential hypertension in men. (PMID: 20409952) Chakraborty S … Sinha AK (Journal of the American Society of Hypertension : JASH 2009) 23 58

Products for CTXN1 Gene

Sources for CTXN1 Gene

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