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Alcam activated leukocyte cell adhesion molecule [ Mus musculus (house mouse) ]

Gene ID: 11658, updated on 25-Sep-2018

Summary

Official Symbol
Alcamprovided by MGI
Official Full Name
activated leukocyte cell adhesion moleculeprovided by MGI
Primary source
MGI:MGI:1313266
See related
Ensembl:ENSMUSG00000022636 Vega:OTTMUSG00000036124
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
BEN; SC1; MuSC; CD166; AI853494; DM-GRASP
Expression
Broad expression in lung adult (RPKM 24.3), CNS E11.5 (RPKM 16.7) and 24 other tissues See more
Orthologs

Genomic context

See Alcam in Genome Data Viewer
Location:
16; 16 B5
Exon count:
16
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 16 NC_000082.6 (52248996..52453064, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 16 NC_000082.5 (52249109..52453110, complement)

Chromosome 16 - NC_000082.6Genomic Context describing neighboring genes Neighboring gene predicted gene, 29686 Neighboring gene Casitas B-lineage lymphoma b Neighboring gene predicted gene, 32597 Neighboring gene predicted gene, 41461 Neighboring gene RIKEN cDNA 4930404A05 gene Neighboring gene RIKEN cDNA 4930405D01 gene

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

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from BioSystems

  • Cell adhesion molecules (CAMs), organism-specific biosystem (from KEGG)
    Cell adhesion molecules (CAMs), organism-specific biosystemCell adhesion molecules are (glyco)proteins expressed on the cell surface and play a critical role in a wide array of biologic processes that include hemostasis, the immune response, inflammation, em...
  • Cell adhesion molecules (CAMs), conserved biosystem (from KEGG)
    Cell adhesion molecules (CAMs), conserved biosystemCell adhesion molecules are (glyco)proteins expressed on the cell surface and play a critical role in a wide array of biologic processes that include hemostasis, the immune response, inflammation, em...

General gene information

Markers

Homology

Clone Names

  • MGC27910

Gene Ontology Provided by MGI

Function Evidence Code Pubs
identical protein binding ISO
Inferred from Sequence Orthology
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
adaptive immune response IEA
Inferred from Electronic Annotation
more info
 
axon guidance IMP
Inferred from Mutant Phenotype
more info
PubMed 
cell adhesion IEA
Inferred from Electronic Annotation
more info
 
heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules ISO
Inferred from Sequence Orthology
more info
 
immune system process IEA
Inferred from Electronic Annotation
more info
 
motor neuron axon guidance IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
colocalizes_with T cell receptor complex ISO
Inferred from Sequence Orthology
more info
 
axon IDA
Inferred from Direct Assay
more info
PubMed 
cell projection IEA
Inferred from Electronic Annotation
more info
 
external side of plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
immunological synapse ISO
Inferred from Sequence Orthology
more info
 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
intrinsic component of plasma membrane ISO
Inferred from Sequence Orthology
more info
 
membrane IEA
Inferred from Electronic Annotation
more info
 
neuronal cell body IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane IEA
Inferred from Electronic Annotation
more info
 

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_001331110.1NP_001318039.1  CD166 antigen isoform 2 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 3' coding region compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AC117780, AC154383, BE654940
    Consensus CDS
    CCDS84242.1
    UniProtKB/TrEMBL
    E9Q3Q6
  2. NM_009655.3NP_033785.1  CD166 antigen isoform 1 precursor

    See identical proteins and their annotated locations for NP_033785.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC154383, AK031391, AK161090, BE654940
    Consensus CDS
    CCDS37356.1
    UniProtKB/Swiss-Prot
    Q61490
    UniProtKB/TrEMBL
    Q3TTY3, Q54AJ5
    Related
    ENSMUSP00000023312.7, OTTMUSP00000051383, ENSMUST00000023312.13, OTTMUST00000092838
    Conserved Domains (4) summary
    smart00410
    Location:255329
    IG_like; Immunoglobulin like
    pfam08205
    Location:137231
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13927
    Location:256313
    Ig_3; Immunoglobulin domain
    cl11960
    Location:415488
    Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000082.6 Reference GRCm38.p4 C57BL/6J

    Range
    52248996..52453064 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006521714.3XP_006521777.1  CD166 antigen isoform X1

    Related
    ENSMUSP00000129714.1, OTTMUSP00000051393, ENSMUST00000170035.7, OTTMUST00000092848
    Conserved Domains (4) summary
    smart00410
    Location:255329
    IG_like; Immunoglobulin like
    pfam08205
    Location:137231
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13927
    Location:256313
    Ig_3; Immunoglobulin domain
    cl11960
    Location:432505
    Ig; Immunoglobulin domain
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