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Smagp small cell adhesion glycoprotein [ Mus musculus (house mouse) ]

Gene ID: 207818, updated on 2-Nov-2024

Summary

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Official Symbol
Smagpprovided by MGI
Official Full Name
small cell adhesion glycoproteinprovided by MGI
Primary source
MGI:MGI:2448476
See related
Ensembl:ENSMUSG00000053559 AllianceGenome:MGI:2448476
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
Summary
Predicted to be located in cell junction; nucleoplasm; and plasma membrane. Is expressed in several structures, including alimentary system; genitourinary system; hindlimb mesenchyme; skeleton; and spleen. Orthologous to human SMAGP (small cell adhesion glycoprotein). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in colon adult (RPKM 168.3), duodenum adult (RPKM 139.4) and 14 other tissues See more
Orthologs
human all
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Genomic context

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See Smagp in Genome Data Viewer
Location:
15 F1; 15 56.37 cM
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (100519220..100534821, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (100621339..100636940, complement)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA C330013E15 gene Neighboring gene STARR-positive B cell enhancer ABC_E610 Neighboring gene DAZ associated protein 2 Neighboring gene bridging integrator 2 Neighboring gene microRNA 6961 Neighboring gene STARR-positive B cell enhancer ABC_E311 Neighboring gene chymotrypsin-like elastase family, member 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 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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GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (2) 

General gene information

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Markers

Homology

Clone Names

  • MGC7903

Gene Ontology Provided by MGI

Component Evidence Code Pubs
located_in cell junction IEA
Inferred from Electronic Annotation
more info
  
located_in cell junction ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasmic vesicle membrane IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
small cell adhesion glycoprotein
Names
small cell transmembrane and glycosylated protein

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_001033872.2 → NP_001029044.1  small cell adhesion glycoprotein isoform 1

    See identical proteins and their annotated locations for NP_001029044.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Both variants 1 and 2 encode the same isoform (1).
    Source sequence(s)
    BG067486, BX635258, CJ042753, CJ053067
    Consensus CDS
    CCDS27842.1
    UniProtKB/Swiss-Prot
    Q99KC7
    Related
    ENSMUSP00000126870.2, ENSMUST00000172334.9

  2. NM_001285413.1 → NP_001272342.1  small cell adhesion glycoprotein isoform 2

    See identical proteins and their annotated locations for NP_001272342.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in its 5' UTR, and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus, compared to isoform 1. Both variants 3 and 4 encode the same isoform.
    Source sequence(s)
    BG067486, BX635258, CJ052873
    Consensus CDS
    CCDS88847.1
    UniProtKB/TrEMBL
    A0A2R8W734
    Related
    ENSMUSP00000155534.2, ENSMUST00000230517.2

  3. NM_001285414.1 → NP_001272343.1  small cell adhesion glycoprotein isoform 2

    See identical proteins and their annotated locations for NP_001272343.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in its 5' UTR, and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus, compared to isoform 1. Both variants 3 and 4 encode the same isoform.
    Source sequence(s)
    BG067486, BX635258, CJ052870, CJ052873
    Consensus CDS
    CCDS88847.1
    UniProtKB/TrEMBL
    A0A2R8W734
    Related
    ENSMUSP00000155782.2, ENSMUST00000229307.2

  4. NM_174992.4 → NP_778157.2  small cell adhesion glycoprotein isoform 1

    See identical proteins and their annotated locations for NP_778157.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1). Both variants 1 and 2 encode the same isoform.
    Source sequence(s)
    AC123724, BG067486, BX635258, CJ042753, CJ053067, CJ065989
    Consensus CDS
    CCDS27842.1
    UniProtKB/Swiss-Prot
    Q99KC7
    Related
    ENSMUSP00000066137.6, ENSMUST00000066068.7

RNA

  1. NR_104337.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) uses alternate splice sites in the 5' and 3'-terminal exons, compared to variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
    Source sequence(s)
    BE132795, BG067486, BX635258, CJ053067

  2. NR_104338.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) uses an alternate splice site in the 3'-terminal exon, compared to variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
    Source sequence(s)
    AC123724, BE132795, BG067486, BX635258, CJ042753, CJ053067, CJ065989

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_000081.7 Reference GRCm39 C57BL/6J

    Range
    100519220..100534821 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q99KC7.2 GenPept UniProtKB/Swiss-Prot:Q99KC7

Gene LinkOut

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

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