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Scamp3 secretory carrier membrane protein 3 [ Mus musculus (house mouse) ]

Gene ID: 24045, updated on 27-Nov-2024

Summary

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Official Symbol
Scamp3provided by MGI
Official Full Name
secretory carrier membrane protein 3provided by MGI
Primary source
MGI:MGI:1346346
See related
Ensembl:ENSMUSG00000028049 AllianceGenome:MGI:1346346
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
Sc3
Summary
Predicted to enable ubiquitin protein ligase binding activity. Acts upstream of or within response to retinoic acid. Located in Golgi membrane. Orthologous to human SCAMP3 (secretory carrier membrane protein 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in adrenal adult (RPKM 100.4), thymus adult (RPKM 60.9) and 28 other tissues See more
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Genomic context

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See Scamp3 in Genome Data Viewer
Location:
3 F1; 3 39.01 cM
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (89084698..89090077)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (89177391..89182770)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene pyruvate kinase liver and red blood cell Neighboring gene hyperpolarization-activated, cyclic nucleotide-gated K+ 3 Neighboring gene predicted gene, 45927 Neighboring gene CDC-like kinase 2 Neighboring gene STARR-positive B cell enhancer ABC_E2079 Neighboring gene predicted gene 16069 Neighboring gene endosomal transmembrane epsin interactor 3 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:88994426-88994609 Neighboring gene STARR-positive B cell enhancer ABC_E275 Neighboring gene STARR-positive B cell enhancer ABC_E10196 Neighboring gene predicted gene, 23269 Neighboring gene glucosylceramidase beta 1 Neighboring gene metaxin 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Gene identification signature (GIS) analysis for transcriptome characterization and genome annotation. Ng P, et al. Nat Methods, 2005 Feb. PMID 15782207
  2. Three mammalian SCAMPs (secretory carrier membrane proteins) are highly related products of distinct genes having similar subcellular distributions. Singleton DR, et al. J Cell Sci, 1997 Sep. PMID 9378760
  3. Novel SCAMPs lacking NPF repeats: ubiquitous and synaptic vesicle-specific forms implicate SCAMPs in multiple membrane-trafficking functions. Fernández-Chacón R, et al. J Neurosci, 2000 Nov 1. PMID 11050114, Free PMC Article
  4. Detailed characterization of the mouse embryonic stem cell transcriptome reveals novel genes and intergenic splicing associated with pluripotency. Kunarso G, et al. BMC Genomics, 2008 Apr 9. PMID 18400104, Free PMC Article
  5. Munc18-1 stabilizes syntaxin 1, but is not essential for syntaxin 1 targeting and SNARE complex formation. Toonen RF, et al. J Neurochem, 2005 Jun. PMID 15935055

See all (28) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Readthrough Gm45927

Readthrough gene: Gm45927, Included gene: Clk2

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ubiquitin protein ligase binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within intracellular protein transport TAS
Traceable Author Statement
more info
 PubMed 
involved_in protein transport IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within response to retinoic acid IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
located_in Golgi membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
  
is_active_in recycling endosome membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in trans-Golgi network membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
secretory carrier-associated membrane protein 3

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_001309909.1 → NP_001296838.1  secretory carrier-associated membrane protein 3 isoform 1

    See identical proteins and their annotated locations for NP_001296838.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AA939832, AC161600, AK135335, AK160549, AV092991
    Consensus CDS
    CCDS84640.1
    UniProtKB/TrEMBL
    Q3UK26, Q3UXS0
    Related
    ENSMUSP00000112846.2, ENSMUST00000120697.8
    Conserved Domains (1) summary
    pfam04144
    Location:135 → 310
    SCAMP; SCAMP family

  2. NM_001309910.1 → NP_001296839.1  secretory carrier-associated membrane protein 3 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 5' coding region and lacks an in-frame exon in the 3' coding region, compared to variant 1. This results in a shorter protein (isoform 3), compared to isoform 1.
    Source sequence(s)
    AA939832, AC161600, AK160549, AV092991
    Consensus CDS
    CCDS84641.1
    UniProtKB/TrEMBL
    E9Q855, Q3TDM8
    Related
    ENSMUSP00000096540.5, ENSMUST00000098941.5
    Conserved Domains (1) summary
    pfam04144
    Location:134 → 275
    SCAMP; SCAMP family

  3. NM_011886.3 → NP_036016.2  secretory carrier-associated membrane protein 3 isoform 2

    See identical proteins and their annotated locations for NP_036016.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.
    Source sequence(s)
    AA939832, AC161600, AK160549, AV092991
    Consensus CDS
    CCDS50959.1
    UniProtKB/Swiss-Prot
    O35609, Q3TUV6, Q99M48, Q9ERM9
    UniProtKB/TrEMBL
    Q3UK26
    Related
    ENSMUSP00000029684.9, ENSMUST00000029684.15
    Conserved Domains (1) summary
    pfam04144
    Location:134 → 309
    SCAMP; SCAMP family

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_000069.7 Reference GRCm39 C57BL/6J

    Range
    89084698..89090077
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O35609.3 GenPept UniProtKB/Swiss-Prot:O35609

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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