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Aliases for CNTNAP1 Gene

Aliases for CNTNAP1 Gene

  • Contactin Associated Protein 1 2 3 5
  • Neurexin IV 3 4
  • Neurexin-4 3 4
  • Caspr1 3 4
  • NRXN4 3 4
  • CASPR 3 4
  • P190 3 4
  • Contactin-Associated Protein 1 3
  • Neurexin 4 2
  • CNTNAP 3

External Ids for CNTNAP1 Gene

Previous HGNC Symbols for CNTNAP1 Gene

  • NRXN4

Previous GeneCards Identifiers for CNTNAP1 Gene

  • GC17P040350
  • GC17P042999
  • GC17P040743
  • GC17P041207
  • GC17P038088
  • GC17P040835
  • GC17P036601

Summaries for CNTNAP1 Gene

Entrez Gene Summary for CNTNAP1 Gene

  • The gene product was initially identified as a 190-kD protein associated with the contactin-PTPRZ1 complex. The 1,384-amino acid protein, also designated p190 or CASPR for 'contactin-associated protein,' includes an extracellular domain with several putative protein-protein interaction domains, a putative transmembrane domain, and a 74-amino acid cytoplasmic domain. Northern blot analysis showed that the gene is transcribed predominantly in brain as a transcript of 6.2 kb, with weak expression in several other tissues tested. The architecture of its extracellular domain is similar to that of neurexins, and this protein may be the signaling subunit of contactin, enabling recruitment and activation of intracellular signaling pathways in neurons. [provided by RefSeq, Jan 2009]

GeneCards Summary for CNTNAP1 Gene

CNTNAP1 (Contactin Associated Protein 1) is a Protein Coding gene. Diseases associated with CNTNAP1 include Lethal Congenital Contracture Syndrome 7 and Hypomyelination Neuropathy-Arthrogryposis Syndrome. Among its related pathways are Developmental Biology and L1CAM interactions. GO annotations related to this gene include receptor activity and SH3/SH2 adaptor activity. An important paralog of this gene is CNTNAP2.

UniProtKB/Swiss-Prot for CNTNAP1 Gene

  • Seems to play a role in the formation of functional distinct domains critical for saltatory conduction of nerve impulses in myelinated nerve fibers. Seems to demarcate the paranodal region of the axo-glial junction. In association with contactin may have a role in the signaling between axons and myelinating glial cells.

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CNTNAP1 Gene

Genomics for CNTNAP1 Gene

Regulatory Elements for CNTNAP1 Gene

Enhancers for CNTNAP1 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
GH17G042672 1.5 ENCODE dbSUPER 54.7 -3.9 -3916 11.4 MLX CREB3L1 ZFP64 DMAP1 YBX1 FEZF1 YY1 SLC30A9 ZNF143 ZNF263 CNTNAP1 TUBG2 ENSG00000267002 ENSG00000259623 HMGN2P15 MLX ENSG00000267765 ENSG00000267340 HSD17B1P1 MEOX1
GH17G043322 1.7 Ensembl ENCODE dbSUPER 34.4 +640.6 640550 1.6 MLX ZFP64 YBX1 DMAP1 YY1 SLC30A9 ZNF416 ZNF143 ZNF548 ZNF263 ENSG00000267340 ENSG00000267002 ASB16-AS1 HMGN1P29 DHX8 NBR2 ENSG00000267765 HSD17B1 CCR10 LINC00910
GH17G042565 1.4 ENCODE dbSUPER 40.9 -115.2 -115175 3.4 HDGF MLX ARNT AGO1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 CNTNAP1 TUBG2 ENSG00000259623 ENSG00000267765 HSD17B1P1 MLX PSMC3IP
GH17G041687 1.7 Ensembl ENCODE dbSUPER 31.7 -992.2 -992215 6.1 MLX CREB3L1 AGO1 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 SP3 CNTNAP1 ENSG00000267758 ENSG00000259623 KLHL10 TMEM99 HSD17B1P1 HAP1 TUBG2 CCR10 HSD17B1
GH17G041986 1.2 dbSUPER 40.7 -695.0 -695025 2.0 CREB3L1 MLX AGO1 ZFP64 DMAP1 FEZF1 YY1 ZNF143 ZNF416 ZNF548 KAT2A CNTNAP1 ENSG00000267758 ENSG00000267765 HSD17B1 ZNF385C ENSG00000259623 LOC108783654 HSD17B1P1 CCR10
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CNTNAP1 on UCSC Golden Path with GeneCards custom track

Promoters for CNTNAP1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000094449 187 801 HDGF SIN3A ARID4B DMAP1 ZNF48 ZNF143 SP5 YY2 MXD4 MIER2

Transcription factor binding sites by QIAGEN in the CNTNAP1 gene promoter:

Genomic Location for CNTNAP1 Gene

42,682,613 bp from pter
42,699,993 bp from pter
17,381 bases
Plus strand

Genomic View for CNTNAP1 Gene

Genes around CNTNAP1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CNTNAP1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CNTNAP1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CNTNAP1 Gene

Proteins for CNTNAP1 Gene

  • Protein details for CNTNAP1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Contactin-associated protein 1
    Protein Accession:

    Protein attributes for CNTNAP1 Gene

    1384 amino acids
    Molecular mass:
    156267 Da
    Quaternary structure:
    • Interacts with contactin in cis form.

neXtProt entry for CNTNAP1 Gene

Post-translational modifications for CNTNAP1 Gene

  • Glycosylation at posLast=120120, Asn128, posLast=276276, posLast=420420, posLast=499499, Asn518, posLast=597597, posLast=653653, posLast=664664, Asn763, posLast=804804, Asn843, Asn860, Asn948, posLast=956956, posLast=10781078, and Asn1147
  • Modification sites at PhosphoSitePlus

Other Protein References for CNTNAP1 Gene

No data available for DME Specific Peptides for CNTNAP1 Gene

Domains & Families for CNTNAP1 Gene

Suggested Antigen Peptide Sequences for CNTNAP1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the neurexin family.
  • Belongs to the neurexin family.
genes like me logo Genes that share domains with CNTNAP1: view

No data available for Gene Families for CNTNAP1 Gene

Function for CNTNAP1 Gene

Molecular function for CNTNAP1 Gene

UniProtKB/Swiss-Prot Function:
Seems to play a role in the formation of functional distinct domains critical for saltatory conduction of nerve impulses in myelinated nerve fibers. Seems to demarcate the paranodal region of the axo-glial junction. In association with contactin may have a role in the signaling between axons and myelinating glial cells.

Gene Ontology (GO) - Molecular Function for CNTNAP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004872 receptor activity TAS 9118959
GO:0005070 SH3/SH2 adaptor activity TAS 9118959
GO:0005515 protein binding IPI 17474147
GO:0017124 SH3 domain binding ISS,IEA --
genes like me logo Genes that share ontologies with CNTNAP1: view
genes like me logo Genes that share phenotypes with CNTNAP1: view

Human Phenotype Ontology for CNTNAP1 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for CNTNAP1 Gene

MGI Knock Outs for CNTNAP1:

Animal Model Products

CRISPR Products

miRNA for CNTNAP1 Gene

miRTarBase miRNAs that target CNTNAP1

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for CNTNAP1 Gene

Localization for CNTNAP1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CNTNAP1 Gene

Membrane; Single-pass type I 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 CNTNAP1 gene
Compartment Confidence
plasma membrane 5
extracellular 2
nucleus 2
cytoskeleton 1
mitochondrion 1
peroxisome 1
lysosome 1

Gene Ontology (GO) - Cellular Components for CNTNAP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005887 integral component of plasma membrane TAS 9118959
GO:0008076 colocalizes_with voltage-gated potassium channel complex IEA,ISS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA,ISS --
GO:0030424 axon IEA --
genes like me logo Genes that share ontologies with CNTNAP1: view

Pathways & Interactions for CNTNAP1 Gene

genes like me logo Genes that share pathways with CNTNAP1: view

Pathways by source for CNTNAP1 Gene

1 KEGG pathway for CNTNAP1 Gene

Gene Ontology (GO) - Biological Process for CNTNAP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002175 protein localization to paranode region of axon ISS --
GO:0007010 cytoskeleton organization ISS,IEA --
GO:0007155 cell adhesion IEA --
GO:0007165 signal transduction TAS 9118959
GO:0009967 positive regulation of signal transduction IEA --
genes like me logo Genes that share ontologies with CNTNAP1: view

No data available for SIGNOR curated interactions for CNTNAP1 Gene

Drugs & Compounds for CNTNAP1 Gene

(2) Drugs for CNTNAP1 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(2) Additional Compounds for CNTNAP1 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CNTNAP1: view

Transcripts for CNTNAP1 Gene

Unigene Clusters for CNTNAP1 Gene

Contactin associated protein 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CNTNAP1 Gene

No ASD Table

Relevant External Links for CNTNAP1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CNTNAP1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CNTNAP1 Gene

mRNA differential expression in normal tissues according to GTEx for CNTNAP1 Gene

This gene is overexpressed in Brain - Cortex (x4.4) and Brain - Cerebellum (x4.0).

Protein differential expression in normal tissues from HIPED for CNTNAP1 Gene

This gene is overexpressed in Frontal cortex (44.1), Brain (10.0), and Spinal cord (9.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for CNTNAP1 Gene

Protein tissue co-expression partners for CNTNAP1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CNTNAP1 Gene:


SOURCE GeneReport for Unigene cluster for CNTNAP1 Gene:


mRNA Expression by UniProt/SwissProt for CNTNAP1 Gene:

Tissue specificity: Predominantly expressed in brain. Weak expression detected in ovary, pancreas, colon, lung, heart, intestine and testis.

Evidence on tissue expression from TISSUES for CNTNAP1 Gene

  • Nervous system(3.5)
  • Eye(2.3)

Phenotype-based relationships between genes and organs from Gene ORGANizer for CNTNAP1 Gene

Germ Layers:
  • ectoderm
  • endoderm
  • mesoderm
  • nervous
  • reproductive
  • respiratory
  • skeletal muscle
  • skeleton
Head and neck:
  • face
  • head
  • lung
  • placenta
  • uterus
  • ankle
  • digit
  • elbow
  • finger
  • foot
  • hand
  • hip
  • knee
  • lower limb
  • shoulder
  • toe
  • upper limb
  • wrist
  • peripheral nerve
  • peripheral nervous system
genes like me logo Genes that share expression patterns with CNTNAP1: view

Primer Products

Orthologs for CNTNAP1 Gene

This gene was present in the common ancestor of animals.

Orthologs for CNTNAP1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia CNTNAP1 34 35
  • 99.76 (n)
(Canis familiaris)
Mammalia CNTNAP1 34 35
  • 90.97 (n)
(Bos Taurus)
Mammalia CNTNAP1 34 35
  • 90.58 (n)
(Mus musculus)
Mammalia Cntnap1 34 16 35
  • 87.93 (n)
(Rattus norvegicus)
Mammalia Cntnap1 34
  • 87.9 (n)
(Monodelphis domestica)
Mammalia CNTNAP1 35
  • 78 (a)
(Ornithorhynchus anatinus)
Mammalia CNTNAP1 35
  • 45 (a)
(Gallus gallus)
Aves CNTNAP1 34 35
  • 70.22 (n)
(Anolis carolinensis)
Reptilia CNTNAP1 35
  • 60 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia cntnap1 34
  • 60.74 (n)
(Danio rerio)
Actinopterygii LOC566220 34
  • 57.55 (n)
  • 50 (a)
fruit fly
(Drosophila melanogaster)
Insecta Nrx-IV 35
  • 30 (a)
Nrx 36
  • 29 (a)
(Caenorhabditis elegans)
Secernentea nlr-1 35
  • 22 (a)
Species where no ortholog for CNTNAP1 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)
  • 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 CNTNAP1 Gene

Gene Tree for CNTNAP1 (if available)
Gene Tree for CNTNAP1 (if available)

Paralogs for CNTNAP1 Gene

(9) SIMAP similar genes for CNTNAP1 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with CNTNAP1: view

Variants for CNTNAP1 Gene

Sequence variations from dbSNP and Humsavar for CNTNAP1 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
rs751050956 Pathogenic 42,693,445(+) CTCCC(-/CT)GTTTC reference, frameshift-variant
rs768554986 Pathogenic 42,686,969(+) GCGGC(C/T)GCATA reference, missense
rs786204799 Pathogenic 42,695,537(+) TCTTT(-/T)GAGCC reference, frameshift-variant
rs786204800 Pathogenic 42,695,519(+) CCTGC(-/AGAT)ATTGG splice-acceptor-variant
rs878853221 Pathogenic 42,690,752(+) GCGTG(A/G)ACAGT reference, stop-gained

Structural Variations from Database of Genomic Variants (DGV) for CNTNAP1 Gene

Variant ID Type Subtype PubMed ID
esv1007587 CNV deletion 20482838
esv33998 OTHER inversion 15654335
nsv1146669 OTHER inversion 26484159
nsv833450 CNV loss 17160897
nsv953899 CNV deletion 24416366

Variation tolerance for CNTNAP1 Gene

Residual Variation Intolerance Score: 0.735% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.83; 58.60% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CNTNAP1 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CNTNAP1 Gene

Disorders for CNTNAP1 Gene

MalaCards: The human disease database

(7) MalaCards diseases for CNTNAP1 Gene - From: OMIM, ClinVar, Orphanet, DISEASES, and GeneCards

- elite association - COSMIC cancer census association via MalaCards


  • Lethal congenital contracture syndrome 7 (LCCS7) [MIM:616286]: A form of lethal congenital contracture syndrome, an autosomal recessive disorder characterized by degeneration of anterior horn neurons, extreme skeletal muscle atrophy and congenital non-progressive joint contractures. The contractures can involve the upper or lower limbs and/or the vertebral column, leading to various degrees of flexion or extension limitations evident at birth. LCCS7 is a severe axoglial disease characterized by congenital distal joint contractures, polyhydramnios, reduced fetal movements, and motor paralysis leading to death early in the neonatal period. {ECO:0000269 PubMed:24319099}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Relevant External Links for CNTNAP1

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with CNTNAP1: view

No data available for Genatlas for CNTNAP1 Gene

Publications for CNTNAP1 Gene

  1. Identification of a novel contactin-associated transmembrane receptor with multiple domains implicated in protein-protein interactions. (PMID: 9118959) Peles E. … Schlessinger J. (EMBO J. 1997) 2 3 4 64
  2. Mutations in CNTNAP1 and ADCY6 are responsible for severe arthrogryposis multiplex congenita with axoglial defects. (PMID: 24319099) LaquAcrriere A. … Melki J. (Hum. Mol. Genet. 2014) 3 4 64
  3. Risk of meningioma and common variation in genes related to innate immunity. (PMID: 20406964) Rajaraman P. … Inskip P.D. (Cancer Epidemiol. Biomarkers Prev. 2010) 3 46 64
  4. Polymorphisms in innate immunity genes and risk of childhood leukemia. (PMID: 20438785) Han S. … Kang D. (Hum. Immunol. 2010) 3 46 64
  5. Identification of new putative susceptibility genes for several psychiatric disorders by association analysis of regulatory and non-synonymous SNPs of 306 genes involved in neurotransmission and neurodevelopment. (PMID: 19086053) GratacA^s M. … Carracedo A. (Am. J. Med. Genet. B Neuropsychiatr. Genet. 2009) 3 46 64

Products for CNTNAP1 Gene

Sources for CNTNAP1 Gene

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