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ALCAM activated leukocyte cell adhesion molecule [ Homo sapiens (human) ]

Gene ID: 214, updated on 5-Aug-2018

Summary

Official Symbol
ALCAMprovided by HGNC
Official Full Name
activated leukocyte cell adhesion moleculeprovided by HGNC
Primary source
HGNC:HGNC:400
See related
Ensembl:ENSG00000170017 MIM:601662; Vega:OTTHUMG00000159192
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
MEMD; CD166
Summary
This gene encodes activated leukocyte cell adhesion molecule (ALCAM), also known as CD166 (cluster of differentiation 166), which is a member of a subfamily of immunoglobulin receptors with five immunoglobulin-like domains (VVC2C2C2) in the extracellular domain. This protein binds to T-cell differentiation antigene CD6, and is implicated in the processes of cell adhesion and migration. Multiple alternatively spliced transcript variants encoding different isoforms have been found. [provided by RefSeq, Aug 2011]
Expression
Broad expression in lung (RPKM 33.7), brain (RPKM 28.3) and 24 other tissues See more
Orthologs

Genomic context

See ALCAM in Genome Data Viewer
Location:
3q13.11
Exon count:
16
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 3 NC_000003.12 (105366713..105576913)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (105085557..105295757)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107986108 Neighboring gene uncharacterized LOC105374023 Neighboring gene Cbl proto-oncogene B Neighboring gene uncharacterized LOC107986109 Neighboring gene uncharacterized LOC105374024

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association study combining pathway analysis for typical sporadic amyotrophic lateral sclerosis in Chinese Han populations.
NHGRI GWA Catalog
Genome-wide association study of plasma N6 polyunsaturated fatty acids within the cohorts for heart and aging research in genomic epidemiology consortium.
NHGRI GWA Catalog
Pilot genome-wide association search identifies potential loci for risk of erectile dysfunction in type 1 diabetes using the DCCT/EDIC study cohort.
NHGRI GWA Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of activated leukocyte cell adhesion molecule (ALCAM) by siRNA enhances the early stages of HIV-1 replication in HeLa-CD4 cells infected with viral pseudotypes HIV89.6R and HIV8.2N PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Axon guidance, organism-specific biosystem (from REACTOME)
    Axon guidance, organism-specific biosystemAxon guidance / axon pathfinding is the process by which neurons send out axons to reach the correct targets. Growing axons have a highly motile structure at the growing tip called the growth cone, w...
  • 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...
  • Developmental Biology, organism-specific biosystem (from REACTOME)
    Developmental Biology, organism-specific biosystemAs a first step towards capturing the array of processes by which a fertilized egg gives rise to the diverse tissues of the body, examples of three kinds of processes have been annotated. These are a...
  • L1CAM interactions, organism-specific biosystem (from REACTOME)
    L1CAM interactions, organism-specific biosystemThe L1 family of cell adhesion molecules (L1CAMs) are a subfamily of the immunoglobulin superfamily of transmembrane receptors, comprised of four structurally related proteins: L1, Close Homolog of L...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ38514, MGC71733

Gene Ontology Provided by GOA

Function Evidence Code Pubs
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
signaling receptor binding TAS
Traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
adaptive immune response IEA
Inferred from Electronic Annotation
more info
 
axon extension involved in axon guidance ISS
Inferred from Sequence or Structural Similarity
more info
 
cell adhesion ISS
Inferred from Sequence or Structural Similarity
more info
 
heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules IMP
Inferred from Mutant Phenotype
more info
PubMed 
motor neuron axon guidance IEA
Inferred from Electronic Annotation
more info
 
neuron projection extension ISS
Inferred from Sequence or Structural Similarity
more info
 
retinal ganglion cell axon guidance ISS
Inferred from Sequence or Structural Similarity
more info
 
signal transduction TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
colocalizes_with T cell receptor complex IDA
Inferred from Direct Assay
more info
PubMed 
axon ISS
Inferred from Sequence or Structural Similarity
more info
 
dendrite IEA
Inferred from Electronic Annotation
more info
 
external side of plasma membrane IEA
Inferred from Electronic Annotation
more info
 
extracellular exosome HDA PubMed 
focal adhesion HDA PubMed 
immunological synapse IDA
Inferred from Direct Assay
more info
PubMed 
integral component of plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
intrinsic component of plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
neuronal cell body 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.

Genomic

  1. NG_029729.1 RefSeqGene

    Range
    5001..215201
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001243280.1NP_001230209.1  CD166 antigen isoform 2 precursor

    See identical proteins and their annotated locations for NP_001230209.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the 3' CDS, compared to variant 1. The resulting isoform (2) lacks an internal segment in the C-terminal region, compared to isoform 1.
    Source sequence(s)
    AC023602, AK316113, DA318514, DB541501
    Consensus CDS
    CCDS58841.1
    UniProtKB/Swiss-Prot
    Q13740
    Related
    ENSP00000419236.2, OTTHUMP00000214314, ENST00000472644.6, OTTHUMT00000353765
    Conserved Domains (5) summary
    smart00406
    Location:38113
    IGv; Immunoglobulin V-Type
    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
  2. NM_001243281.1NP_001230210.1  CD166 antigen isoform 3 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) has a shorter and different 3' sequence, compared to variant 1. The resulting isoform (3) is truncated at the C-terminus, compared to isoform 1.
    Source sequence(s)
    AK054632, BC029639, CA430528, DA318514
    UniProtKB/TrEMBL
    B3KNN9
    Conserved Domains (5) summary
    smart00406
    Location:38113
    IGv; Immunoglobulin V-Type
    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
  3. NM_001243283.1NP_001230212.1  CD166 antigen isoform 4 precursor

    See identical proteins and their annotated locations for NP_001230212.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks multiple 3' exons, and has an alternate 3' sequence, compared to variant 1. The resulting isoform (4) is the shortest; it is truncated at the C-terminus, compared to isoform 1.
    Source sequence(s)
    AY644765, BC041127, DA318514
    UniProtKB/Swiss-Prot
    Q13740
    Conserved Domains (2) summary
    smart00406
    Location:38113
    IGv; Immunoglobulin V-Type
    smart00410
    Location:36130
    IG_like; Immunoglobulin like
  4. NM_001627.3NP_001618.2  CD166 antigen isoform 1 precursor

    See identical proteins and their annotated locations for NP_001618.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC023602, AL833702, BC029639, DA318514, DB541501
    Consensus CDS
    CCDS33810.1
    UniProtKB/Swiss-Prot
    Q13740
    Related
    ENSP00000305988.5, OTTHUMP00000214313, ENST00000306107.9, OTTHUMT00000353764
    Conserved Domains (5) summary
    smart00406
    Location:38113
    IGv; Immunoglobulin V-Type
    smart00409
    Location:339393
    IG; Immunoglobulin
    pfam08205
    Location:137231
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13927
    Location:250313
    Ig_3; Immunoglobulin domain
    cl11960
    Location:415488
    Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p12 Primary Assembly

    Range
    105366713..105576913
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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