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Ncam1 neural cell adhesion molecule 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 24586, updated on 12-Aug-2018

Summary

Official Symbol
Ncam1provided by RGD
Official Full Name
neural cell adhesion molecule 1provided by RGD
Primary source
RGD:67378
See related
Ensembl:ENSRNOG00000031890
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Cd56; Ncam; N-CAM; NCAMC; NCAM-1; NCAM-C; N-CAM-1
Summary
cell adhesion molecule; involved in neuronal cell adhesion [RGD, Feb 2006]
Expression
Biased expression in Brain (RPKM 216.9), Kidney (RPKM 51.7) and 6 other tissues See more
Orthologs

Genomic context

See Ncam1 in Genome Data Viewer
Location:
8q23
Exon count:
25
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (53836797..54134881, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 8 NC_005107.3 (52456154..52755707, complement)

Chromosome 8 - NC_005107.4Genomic Context describing neighboring genes Neighboring gene tetratricopeptide repeat domain 12 Neighboring gene uncharacterized LOC102555969 Neighboring gene uncharacterized LOC102556026 Neighboring gene uncharacterized LOC108351701 Neighboring gene uncharacterized LOC108351702

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC124601

Gene Ontology Provided by RGD

Function Evidence Code Pubs
LRR domain binding IPI
Inferred from Physical Interaction
more info
PubMed 
cytoskeletal protein binding TAS
Traceable Author Statement
more info
PubMed 
fibroblast growth factor receptor binding TAS
Traceable Author Statement
more info
PubMed 
heparin binding IEA
Inferred from Electronic Annotation
more info
 
identical protein binding ISO
Inferred from Sequence Orthology
more info
 
phosphatase binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
aging IDA
Inferred from Direct Assay
more info
PubMed 
animal organ regeneration IEP
Inferred from Expression Pattern
more info
PubMed 
axonal fasciculation IMP
Inferred from Mutant Phenotype
more info
PubMed 
calcium-independent cell-cell adhesion via plasma membrane cell-adhesion molecules TAS
Traceable Author Statement
more info
PubMed 
cell adhesion IEA
Inferred from Electronic Annotation
more info
 
cell adhesion TAS
Traceable Author Statement
more info
PubMed 
cell surface receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
cellular response to inorganic substance IEP
Inferred from Expression Pattern
more info
PubMed 
cellular response to molecule of bacterial origin IEP
Inferred from Expression Pattern
more info
PubMed 
commissural neuron axon guidance ISO
Inferred from Sequence Orthology
more info
 
homotypic cell-cell adhesion ISO
Inferred from Sequence Orthology
more info
 
learning or memory IDA
Inferred from Direct Assay
more info
PubMed 
learning or memory IMP
Inferred from Mutant Phenotype
more info
PubMed 
modulation of chemical synaptic transmission EXP
Inferred from Experiment
more info
PubMed 
multicellular organismal response to stress IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of cell death IMP
Inferred from Mutant Phenotype
more info
PubMed 
neuron development IDA
Inferred from Direct Assay
more info
PubMed 
neuron projection development ISO
Inferred from Sequence Orthology
more info
 
peripheral nervous system axon regeneration IEP
Inferred from Expression Pattern
more info
PubMed 
positive regulation of calcium-mediated signaling ISO
Inferred from Sequence Orthology
more info
 
positive regulation of cardiac muscle cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of exocyst assembly ISO
Inferred from Sequence Orthology
more info
 
regulation of semaphorin-plexin signaling pathway ISO
Inferred from Sequence Orthology
more info
 
regulation of sensory perception of pain IMP
Inferred from Mutant Phenotype
more info
PubMed 
response to activity IEP
Inferred from Expression Pattern
more info
PubMed 
response to cocaine IDA
Inferred from Direct Assay
more info
PubMed 
response to drug IDA
Inferred from Direct Assay
more info
PubMed 
response to inorganic substance IEP
Inferred from Expression Pattern
more info
PubMed 
response to lead ion IDA
Inferred from Direct Assay
more info
PubMed 
thalamus development IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
Schaffer collateral - CA1 synapse EXP
Inferred from Experiment
more info
PubMed 
axon ISO
Inferred from Sequence Orthology
more info
 
cell surface ISO
Inferred from Sequence Orthology
more info
 
cell-cell junction ISO
Inferred from Sequence Orthology
more info
 
cytosol IEA
Inferred from Electronic Annotation
more info
 
cytosol ISO
Inferred from Sequence Orthology
more info
 
external side of plasma membrane ISO
Inferred from Sequence Orthology
more info
 
glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
growth cone ISO
Inferred from Sequence Orthology
more info
 
growth cone TAS
Traceable Author Statement
more info
PubMed 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of postsynaptic membrane IDA
Inferred from Direct Assay
more info
PubMed 
integral component of presynaptic membrane IDA
Inferred from Direct Assay
more info
PubMed 
myelin sheath ISO
Inferred from Sequence Orthology
more info
 
neuronal cell body IDA
Inferred from Direct Assay
more info
PubMed 
neuronal cell body ISO
Inferred from Sequence Orthology
more info
 
plasma membrane IEA
Inferred from Electronic Annotation
more info
 
plasma membrane ISO
Inferred from Sequence Orthology
more info
 
plasma membrane TAS
Traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
neural cell adhesion molecule 1
NP_113709.1
XP_006243048.1
XP_006243050.1
XP_006243056.1
XP_008764414.1
XP_008764415.1
XP_017450949.1
XP_017450950.1
XP_017450951.1
XP_017450952.1
XP_017450953.1
XP_017450954.1

NCBI Reference Sequences (RefSeq)

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_031521.1NP_113709.1  neural cell adhesion molecule 1 precursor

    See identical proteins and their annotated locations for NP_113709.1

    Status: PROVISIONAL

    Source sequence(s)
    X06564
    UniProtKB/Swiss-Prot
    P13596
    Related
    ENSRNOP00000048442.4, ENSRNOT00000042281.6
    Conserved Domains (8) summary
    cd05730
    Location:211308
    Ig3_NCAM-1_like; Third immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM)
    cd05865
    Location:20115
    Ig1_NCAM-1; First immunoglobulin (Ig)-like domain of neural cell adhesion molecule NCAM-1
    cd05869
    Location:307413
    Ig5_NCAM-1; Fifth immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM)
    smart00408
    Location:429497
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:422500
    IG_like; Immunoglobulin like
    cd00063
    Location:509606
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam07679
    Location:218305
    I-set; Immunoglobulin I-set domain
    pfam00041
    Location:613694
    fn3; Fibronectin type III domain

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005107.4 Reference Rnor_6.0 Primary Assembly

    Range
    53836797..54134881 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017595463.1XP_017450952.1  neural cell adhesion molecule 1 isoform X9

  2. XM_017595461.1XP_017450950.1  neural cell adhesion molecule 1 isoform X6

  3. XM_006242994.2XP_006243056.1  neural cell adhesion molecule 1 isoform X8

    See identical proteins and their annotated locations for XP_006243056.1

    UniProtKB/TrEMBL
    Q3T1H3
    Conserved Domains (8) summary
    cd05730
    Location:211308
    Ig3_NCAM-1_like; Third immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM)
    cd05865
    Location:20115
    Ig1_NCAM-1; First immunoglobulin (Ig)-like domain of neural cell adhesion molecule NCAM-1
    cd05869
    Location:307403
    Ig5_NCAM-1; Fifth immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM)
    smart00408
    Location:419487
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:412490
    IG_like; Immunoglobulin like
    cd00063
    Location:499596
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam07679
    Location:218305
    I-set; Immunoglobulin I-set domain
    pfam00041
    Location:603685
    fn3; Fibronectin type III domain
  4. XM_017595460.1XP_017450949.1  neural cell adhesion molecule 1 isoform X5

  5. XM_006242988.2XP_006243050.1  neural cell adhesion molecule 1 isoform X4

    Conserved Domains (8) summary
    cd05730
    Location:211308
    Ig3_NCAM-1_like; Third immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM)
    cd05865
    Location:20115
    Ig1_NCAM-1; First immunoglobulin (Ig)-like domain of neural cell adhesion molecule NCAM-1
    cd05869
    Location:307413
    Ig5_NCAM-1; Fifth immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM)
    smart00408
    Location:429497
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:422500
    IG_like; Immunoglobulin like
    cd00063
    Location:509606
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam07679
    Location:218305
    I-set; Immunoglobulin I-set domain
    pfam00041
    Location:613695
    fn3; Fibronectin type III domain
  6. XM_008766193.1XP_008764415.1  neural cell adhesion molecule 1 isoform X3

    Conserved Domains (8) summary
    cd05730
    Location:211308
    Ig3_NCAM-1_like; Third immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM)
    cd05865
    Location:20115
    Ig1_NCAM-1; First immunoglobulin (Ig)-like domain of neural cell adhesion molecule NCAM-1
    cd05869
    Location:307413
    Ig5_NCAM-1; Fifth immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM)
    smart00408
    Location:429497
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:422500
    IG_like; Immunoglobulin like
    cd00063
    Location:509606
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam07679
    Location:218305
    I-set; Immunoglobulin I-set domain
    pfam00041
    Location:614696
    fn3; Fibronectin type III domain
  7. XM_006242986.2XP_006243048.1  neural cell adhesion molecule 1 isoform X2

    Related
    ENSRNOP00000071509.1, ENSRNOT00000082257.1
    Conserved Domains (8) summary
    cd05730
    Location:211308
    Ig3_NCAM-1_like; Third immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM)
    cd05865
    Location:20115
    Ig1_NCAM-1; First immunoglobulin (Ig)-like domain of neural cell adhesion molecule NCAM-1
    cd05869
    Location:307413
    Ig5_NCAM-1; Fifth immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM)
    smart00408
    Location:429497
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:422500
    IG_like; Immunoglobulin like
    cd00063
    Location:509606
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam07679
    Location:218305
    I-set; Immunoglobulin I-set domain
    pfam00041
    Location:618700
    fn3; Fibronectin type III domain
  8. XM_008766192.1XP_008764414.1  neural cell adhesion molecule 1 isoform X1

    Conserved Domains (8) summary
    cd05730
    Location:211308
    Ig3_NCAM-1_like; Third immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM)
    cd05865
    Location:20115
    Ig1_NCAM-1; First immunoglobulin (Ig)-like domain of neural cell adhesion molecule NCAM-1
    cd05869
    Location:307413
    Ig5_NCAM-1; Fifth immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM)
    smart00408
    Location:429497
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:422500
    IG_like; Immunoglobulin like
    cd00063
    Location:509606
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam07679
    Location:218305
    I-set; Immunoglobulin I-set domain
    pfam00041
    Location:619701
    fn3; Fibronectin type III domain
  9. XM_017595462.1XP_017450951.1  neural cell adhesion molecule 1 isoform X7

  10. XM_017595465.1XP_017450954.1  neural cell adhesion molecule 1 isoform X11

  11. XM_017595464.1XP_017450953.1  neural cell adhesion molecule 1 isoform X10

Alternate Rn_Celera

Genomic

  1. AC_000076.1 Alternate Rn_Celera

    Range
    49420106..49716981 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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