Human Gene CNTNAP2 (ENST00000361727.8_5) from GENCODE V47lift37
  Description: contactin associated protein 2 (from RefSeq NM_014141.6)
Gencode Transcript: ENST00000361727.8_5
Gencode Gene: ENSG00000174469.23_19
Transcript (Including UTRs)
   Position: hg19 chr7:145,813,893-148,118,090 Size: 2,304,198 Total Exon Count: 24 Strand: +
Coding Region
   Position: hg19 chr7:145,813,969-148,112,708 Size: 2,298,740 Coding Exon Count: 24 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:145,813,893-148,118,090)mRNA (may differ from genome)Protein (1331 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCHuman Cortex Gene ExpressionMalacardsMGIOMIMPubMed
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CNTP2_HUMAN
DESCRIPTION: RecName: Full=Contactin-associated protein-like 2; AltName: Full=Cell recognition molecule Caspr2; Flags: Precursor;
FUNCTION: May 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 juxtaparanodal region of the axo-glial junction.
SUBUNIT: Associates with KCNA2 (By similarity).
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein (Potential).
TISSUE SPECIFICITY: Predominantly expressed in nervous system.
DISEASE: Defects in CNTNAP2 are the cause of cortical dysplasia- focal epilepsy syndrome (CDFES) [MIM:610042]. Affected individuals manifest cortical dysplasia, focal epilepsy, relative macrocephaly, and diminished deep-tendon reflexes. Intractable focal seizures begin in early childhood, after which language regression, hyperactivity, impulsive and aggressive behavior, and mental retardation develop.
DISEASE: Genetic variations in CNTNAP2 influences susceptibility to autism type 15 (AUTS15) [MIM:612100]. Autism is a neurodevelopmental disorder characterized by disturbance in language, perception and socialization. The disorder is classically defined by a triad of limited or absent verbal communication, a lack of reciprocal social interaction or responsiveness, and restricted, stereotypical, and ritualized patterns of interests and behavior.
DISEASE: Note=A chromosomal aberration involving CNTNAP2 is found in a patient with autism spectrum disorder. Paracentric inversion 46,XY,inv(7)(q11.22;q35). The inversion breakpoints disrupt the genes AUTS2 and CNTNAP2.
SIMILARITY: Belongs to the neurexin family.
SIMILARITY: Contains 2 EGF-like domains.
SIMILARITY: Contains 1 F5/8 type C domain.
SIMILARITY: Contains 1 fibrinogen C-terminal domain.
SIMILARITY: Contains 4 laminin G-like domains.
SEQUENCE CAUTION: Sequence=BAA74891.1; Type=Erroneous initiation;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: CNTNAP2
Diseases sorted by gene-association score: cortical dysplasia-focal epilepsy syndrome* (1494), autism susceptibility 15* (575), pitt-hopkins-like syndrome* (247), gilles de la tourette syndrome (19), pitt-hopkins syndrome (18), mutism (17), childhood apraxia of speech (13), focal epilepsy (13), autism spectrum disorder (12), specific language impairment (11), pervasive developmental disorder (11), stuttering (9), exfoliation syndrome (8), speech and communication disorders (8), thymus cancer (7), speech disorder (6), articulation disorder (6), reading disorder (5), schizophrenia (2), intellectual disability (2), attention deficit-hyperactivity disorder (2), autistic disorder (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 17.97 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 111.11 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -30.0076-0.395 Picture PostScript Text
3' UTR -1337.345382-0.248 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000421 - Coagulation_fac_5/8-C_type_dom
IPR008985 - ConA-like_lec_gl_sf
IPR013320 - ConA-like_subgrp
IPR000742 - EG-like_dom
IPR002181 - Fibrinogen_a/b/g_C
IPR008979 - Galactose-bd-like
IPR001791 - Laminin_G
IPR003585 - Neurexin-like

Pfam Domains:
PF00054 - Laminin G domain
PF00754 - F5/8 type C domain
PF02210 - Laminin G domain
PF12661 - Human growth factor-like EGF

SCOP Domains:
49785 - Galactose-binding domain-like
49899 - Concanavalin A-like lectins/glucanases
56496 - Fibrinogen C-terminal domain-like
55486 - Metalloproteases ("zincins"), catalytic domain
57196 - EGF/Laminin

ModBase Predicted Comparative 3D Structure on Q9UHC6
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details  Gene Details  
Gene Sorter  Gene Sorter  
  Ensembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0019899 enzyme binding

Biological Process:
GO:0007155 cell adhesion
GO:0007420 brain development
GO:0007612 learning
GO:0008038 neuron recognition
GO:0019226 transmission of nerve impulse
GO:0021756 striatum development
GO:0021761 limbic system development
GO:0021794 thalamus development
GO:0021987 cerebral cortex development
GO:0030534 adult behavior
GO:0031175 neuron projection development
GO:0035176 social behavior
GO:0042297 vocal learning
GO:0045163 clustering of voltage-gated potassium channels
GO:0048812 neuron projection morphogenesis
GO:0071109 superior temporal gyrus development
GO:0071205 protein localization to juxtaparanode region of axon
GO:0071625 vocalization behavior

Cellular Component:
GO:0005769 early endosome
GO:0005794 Golgi apparatus
GO:0008076 voltage-gated potassium channel complex
GO:0009986 cell surface
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030054 cell junction
GO:0030424 axon
GO:0030425 dendrite
GO:0030673 axolemma
GO:0033010 paranodal junction
GO:0042995 cell projection
GO:0043025 neuronal cell body
GO:0043204 perikaryon
GO:0044224 juxtaparanode region of axon


-  Descriptions from all associated GenBank mRNAs
  AF319045 - Homo sapiens contactin-associated protein 2 (CNTNAP2) mRNA, complete cds.
AK315113 - Homo sapiens cDNA, FLJ96073, highly similar to Homo sapiens contactin associated protein-like 2 (CNTNAP2), mRNA.
AB462990 - Synthetic construct DNA, clone: pF1KA0868, Homo sapiens CNTNAP2 gene for contactin associated protein-like 2, without stop codon, in Flexi system.
BC093780 - Homo sapiens contactin associated protein-like 2, mRNA (cDNA clone MGC:120815 IMAGE:7939625), complete cds.
BC113373 - Homo sapiens contactin associated protein-like 2, mRNA (cDNA clone MGC:141933 IMAGE:8322425), complete cds.
AB020675 - Homo sapiens KIAA0868 mRNA for KIAA0868 protein.
AF193613 - Homo sapiens cell recognition molecule Caspr2 (CASPR2) mRNA, complete cds.
KJ534811 - Homo sapiens clone CNTNAP2_iso-B_fetal-F01 contactin associated protein-like 2 isoform B (CNTNAP2) mRNA, partial cds, alternatively spliced.
KJ535088 - Homo sapiens clone CNTNAP2_iso-C_fetal-F14 contactin associated protein-like 2 isoform C (CNTNAP2) mRNA, complete cds, alternatively spliced.
AK296532 - Homo sapiens cDNA FLJ51881 complete cds, highly similar to Contactin-associated protein-like 2 precursor.
AB073883 - Homo sapiens primary neuroblastoma cDNA, clone:Nbla00831, full insert sequence.
KJ534813 - Homo sapiens clone CNTNAP2_iso-D_fetal-F10 contactin associated protein-like 2 isoform D (CNTNAP2) mRNA, partial cds, alternatively spliced.
KJ535069 - Homo sapiens clone CNTNAP2_iso-E_fetal-F03 contactin associated protein-like 2 isoform E (CNTNAP2) mRNA, complete cds, alternatively spliced.
AK294098 - Homo sapiens cDNA FLJ53861 complete cds, highly similar to Contactin-associated protein-like 2 precursor.
KJ534810 - Homo sapiens clone CNTNAP2_iso-F_adult-A13 contactin associated protein-like 2 isoform F (CNTNAP2) mRNA, partial cds, alternatively spliced.
KJ534812 - Homo sapiens clone CNTNAP2_iso-G_fetal-F04 contactin associated protein-like 2 isoform G (CNTNAP2) mRNA, partial cds, alternatively spliced.
CR933671 - Homo sapiens mRNA; cDNA DKFZp781D1846 (from clone DKFZp781D1846).
KJ534814 - Homo sapiens clone CNTNAP2_iso-H_fetal-F11 contactin associated protein-like 2 isoform H (CNTNAP2) mRNA, partial cds, alternatively spliced.
JD291529 - Sequence 272553 from Patent EP1572962.
JD470043 - Sequence 451067 from Patent EP1572962.
JD457784 - Sequence 438808 from Patent EP1572962.
JD129164 - Sequence 110188 from Patent EP1572962.
JD314659 - Sequence 295683 from Patent EP1572962.
JD286099 - Sequence 267123 from Patent EP1572962.
JD323851 - Sequence 304875 from Patent EP1572962.
JD468010 - Sequence 449034 from Patent EP1572962.
JD557249 - Sequence 538273 from Patent EP1572962.
JD500621 - Sequence 481645 from Patent EP1572962.
JD337425 - Sequence 318449 from Patent EP1572962.
AK000960 - Homo sapiens cDNA FLJ10098 fis, clone HEMBA1002460.
JD259625 - Sequence 240649 from Patent EP1572962.
JD370766 - Sequence 351790 from Patent EP1572962.
JD348461 - Sequence 329485 from Patent EP1572962.
JD355434 - Sequence 336458 from Patent EP1572962.
JD096999 - Sequence 78023 from Patent EP1572962.
JD060389 - Sequence 41413 from Patent EP1572962.
JD245471 - Sequence 226495 from Patent EP1572962.
JD367898 - Sequence 348922 from Patent EP1572962.
JD374588 - Sequence 355612 from Patent EP1572962.
JD110905 - Sequence 91929 from Patent EP1572962.
JD333675 - Sequence 314699 from Patent EP1572962.
JD109762 - Sequence 90786 from Patent EP1572962.
JD252705 - Sequence 233729 from Patent EP1572962.
JD046512 - Sequence 27536 from Patent EP1572962.
JD491698 - Sequence 472722 from Patent EP1572962.
JD433007 - Sequence 414031 from Patent EP1572962.
JD268653 - Sequence 249677 from Patent EP1572962.
JD354088 - Sequence 335112 from Patent EP1572962.
JD301664 - Sequence 282688 from Patent EP1572962.
JD524960 - Sequence 505984 from Patent EP1572962.
JD351407 - Sequence 332431 from Patent EP1572962.
JD521904 - Sequence 502928 from Patent EP1572962.
JD048628 - Sequence 29652 from Patent EP1572962.
JD453260 - Sequence 434284 from Patent EP1572962.
JD328808 - Sequence 309832 from Patent EP1572962.
JD349733 - Sequence 330757 from Patent EP1572962.
JD151511 - Sequence 132535 from Patent EP1572962.
JD052519 - Sequence 33543 from Patent EP1572962.
JD375718 - Sequence 356742 from Patent EP1572962.
JD288806 - Sequence 269830 from Patent EP1572962.
JD096956 - Sequence 77980 from Patent EP1572962.
JD312799 - Sequence 293823 from Patent EP1572962.
JD519260 - Sequence 500284 from Patent EP1572962.
JD412335 - Sequence 393359 from Patent EP1572962.
JD245199 - Sequence 226223 from Patent EP1572962.
JD456272 - Sequence 437296 from Patent EP1572962.
JD468672 - Sequence 449696 from Patent EP1572962.
JD523029 - Sequence 504053 from Patent EP1572962.
JD388880 - Sequence 369904 from Patent EP1572962.
JD246197 - Sequence 227221 from Patent EP1572962.
JD319918 - Sequence 300942 from Patent EP1572962.
DQ584559 - Homo sapiens piRNA piR-51671, complete sequence.
JD304694 - Sequence 285718 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CASPR2 , CNTP2_HUMAN, D3DWG2, ENST00000361727.1, ENST00000361727.2, ENST00000361727.3, ENST00000361727.4, ENST00000361727.5, ENST00000361727.6, ENST00000361727.7, KIAA0868, NM_014141, Q14DG2, Q52LV1, Q5H9Q7, Q9UHC6, Q9UQ12, uc318chh.1, uc318chh.2
UCSC ID: ENST00000361727.8_5
RefSeq Accession: NM_014141.6
Protein: Q9UHC6 (aka CNTP2_HUMAN or CTA2_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.