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Cntnap5c contactin associated protein-like 5C [ Mus musculus (house mouse) ]

Gene ID: 620292, updated on 8-Feb-2024

Summary

Official Symbol
Cntnap5cprovided by MGI
Official Full Name
contactin associated protein-like 5Cprovided by MGI
Primary source
MGI:MGI:3646013
See related
Ensembl:ENSMUSG00000038048 AllianceGenome:MGI:3646013
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Gm325; Caspr5-3; EG620292
Summary
Predicted to act upstream of or within cell adhesion. Predicted to be located in membrane. Predicted to be integral component of membrane. Is expressed in CA1 pyramidal cell layer; brain; central nervous system; and hippocampus CA3. Orthologous to human CNTNAP5 (contactin associated protein family member 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in CNS E18 (RPKM 1.3), frontal lobe adult (RPKM 0.7) and 6 other tissues See more
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Genomic context

See Cntnap5c in Genome Data Viewer
Location:
17 D; 17 30.01 cM
Exon count:
29
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (58076070..58724948)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (57769074..58417953)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 25102 Neighboring gene tubulin, beta 5 pseudogene Neighboring gene STARR-seq mESC enhancer starr_42926 Neighboring gene ribosomal protein L7A, pseudogene 5 Neighboring gene STARR-seq mESC enhancer starr_42927 Neighboring gene STARR-seq mESC enhancer starr_42928 Neighboring gene translation machinery-associated protein 7 pseudogene Neighboring gene lectin, galactose binding, soluble 8 pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 

General gene information

Markers

Gene Ontology Provided by MGI

Process Evidence Code Pubs
acts_upstream_of_or_within cell adhesion IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
contactin-associated protein like 5-3
Names
cell recognition molecule Caspr5-3
cell recognition molecule Caspr5c
contactin-associated protein-like 5c

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001081653.3NP_001075122.1  contactin-associated protein like 5-3 precursor

    See identical proteins and their annotated locations for NP_001075122.1

    Status: VALIDATED

    Source sequence(s)
    AC118684, AC120548, AC122209, AC127557, AC154498, CT025736
    Consensus CDS
    CCDS37671.1
    UniProtKB/Swiss-Prot
    Q0V8T7
    Related
    ENSMUSP00000075416.6, ENSMUST00000076038.7
    Conserved Domains (6) summary
    smart00231
    Location:30174
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain
    smart00282
    Location:205338
    LamG; Laminin G domain
    cd00054
    Location:960995
    EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
    cd00057
    Location:39173
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
    cd00110
    Location:792936
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam02210
    Location:395521
    Laminin_G_2; Laminin G domain

RNA

  1. NR_160889.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC120548

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000083.7 Reference GRCm39 C57BL/6J

    Range
    58076070..58724948
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006524744.3XP_006524807.1  contactin-associated protein like 5-3 isoform X5

    See identical proteins and their annotated locations for XP_006524807.1

    Conserved Domains (6) summary
    smart00282
    Location:205338
    LamG; Laminin G domain
    cd00054
    Location:961996
    EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
    cd00057
    Location:39173
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
    cd00110
    Location:793937
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam00008
    Location:551582
    EGF; EGF-like domain
    pfam02210
    Location:396519
    Laminin_G_2; Laminin G domain
  2. XM_006524747.4XP_006524810.1  contactin-associated protein like 5-3 isoform X6

    Conserved Domains (6) summary
    smart00282
    Location:205338
    LamG; Laminin G domain
    cd00054
    Location:961996
    EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
    cd00057
    Location:39173
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
    cd00110
    Location:793937
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam00008
    Location:551582
    EGF; EGF-like domain
    pfam02210
    Location:396519
    Laminin_G_2; Laminin G domain
  3. XM_006524750.4XP_006524813.1  contactin-associated protein like 5-3 isoform X10

    Conserved Domains (4) summary
    smart00282
    Location:205338
    LamG; Laminin G domain
    cd00057
    Location:39173
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
    pfam00008
    Location:551582
    EGF; EGF-like domain
    pfam02210
    Location:396519
    Laminin_G_2; Laminin G domain
  4. XM_006524748.4XP_006524811.1  contactin-associated protein like 5-3 isoform X7

    Conserved Domains (5) summary
    smart00282
    Location:205338
    LamG; Laminin G domain
    cd00057
    Location:39173
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
    cd00110
    Location:793890
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam00008
    Location:551582
    EGF; EGF-like domain
    pfam02210
    Location:396519
    Laminin_G_2; Laminin G domain
  5. XM_006524749.4XP_006524812.1  contactin-associated protein like 5-3 isoform X9

    Conserved Domains (4) summary
    smart00282
    Location:205338
    LamG; Laminin G domain
    cd00057
    Location:39173
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
    pfam00008
    Location:551582
    EGF; EGF-like domain
    pfam02210
    Location:396519
    Laminin_G_2; Laminin G domain
  6. XM_006524741.4XP_006524804.1  contactin-associated protein like 5-3 isoform X1

    Conserved Domains (6) summary
    smart00282
    Location:205338
    LamG; Laminin G domain
    cd00054
    Location:961996
    EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
    cd00057
    Location:39173
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
    cd00110
    Location:793937
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam00008
    Location:551582
    EGF; EGF-like domain
    pfam02210
    Location:396519
    Laminin_G_2; Laminin G domain
  7. XM_006524742.5XP_006524805.1  contactin-associated protein like 5-3 isoform X2

    Conserved Domains (5) summary
    cd00054
    Location:913948
    EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
    cd00057
    Location:39173
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
    cd00110
    Location:745889
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam00008
    Location:503534
    EGF; EGF-like domain
    pfam02210
    Location:348471
    Laminin_G_2; Laminin G domain
  8. XM_030249937.2XP_030105797.1  contactin-associated protein like 5-3 isoform X4

    Conserved Domains (6) summary
    smart00282
    Location:73206
    LamG; Laminin G domain
    cd00054
    Location:829864
    EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
    cd00110
    Location:661805
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    cl25480
    Location:242
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
    pfam00008
    Location:419450
    EGF; EGF-like domain
    pfam02210
    Location:264387
    Laminin_G_2; Laminin G domain
  9. XM_036160717.1XP_036016610.1  contactin-associated protein like 5-3 isoform X8

    Conserved Domains (4) summary
    cd00054
    Location:512547
    EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
    cd00110
    Location:344488
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam00008
    Location:102133
    EGF; EGF-like domain
    pfam02210
    Location:596724
    Laminin_G_2; Laminin G domain
  10. XM_017317594.3XP_017173083.1  contactin-associated protein like 5-3 isoform X11

    Conserved Domains (3) summary
    cd00054
    Location:331366
    EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
    cd00110
    Location:163307
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam02210
    Location:415540
    Laminin_G_2; Laminin G domain
  11. XM_011246557.4XP_011244859.1  contactin-associated protein like 5-3 isoform X3

    Conserved Domains (6) summary
    smart00282
    Location:144277
    LamG; Laminin G domain
    cd00054
    Location:900935
    EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
    cd00057
    Location:2112
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
    cd00110
    Location:732876
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam00008
    Location:490521
    EGF; EGF-like domain
    pfam02210
    Location:335458
    Laminin_G_2; Laminin G domain

RNA

  1. XR_385354.3 RNA Sequence

  2. XR_385355.4 RNA Sequence

  3. XR_385356.4 RNA Sequence