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    Tmem54 transmembrane protein 54 [ Mus musculus (house mouse) ]

    Gene ID: 66260, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Tmem54provided by MGI
    Official Full Name
    transmembrane protein 54provided by MGI
    Primary source
    MGI:MGI:1913510
    See related
    Ensembl:ENSMUSG00000028786 AllianceGenome:MGI:1913510
    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
    1810017F10Rik
    Summary
    Predicted to be located in membrane. Predicted to be integral component of membrane. Is expressed in several structures, including alimentary system; cranium; nose; respiratory system; and urinary system. Orthologous to human TMEM54 (transmembrane protein 54). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in large intestine adult (RPKM 282.3), duodenum adult (RPKM 265.0) and 3 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Tmem54 in Genome Data Viewer
    Location:
    4 D2.2; 4 62.86 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (128999321..129005419)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (129105529..129111626)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 1700086P04 gene Neighboring gene STARR-positive B cell enhancer ABC_E10260 Neighboring gene STARR-positive B cell enhancer ABC_E3516 Neighboring gene ring finger protein 19B Neighboring gene hippocalcin Neighboring gene STARR-positive B cell enhancer ABC_E4669 Neighboring gene fibronectin type III domain containing 5 Neighboring gene S100P binding protein Neighboring gene STARR-positive B cell enhancer ABC_E3517

    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. A Grhl2-dependent gene network controls trophoblast branching morphogenesis. Walentin K, et al. Development, 2015 Mar 15. PMID 25758223, Free PMC Article
    2. Pancreatic islet and progenitor cell surface markers with cell sorting potential. Hald J, et al. Diabetologia, 2012 Jan. PMID 21947380
    3. GenePaint.org: an atlas of gene expression patterns in the mouse embryo. Visel A, et al. Nucleic Acids Res, 2004 Jan 1. PMID 14681479, Free PMC Article
    4. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

    See all (13) 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)
    • Targeted (1) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    transmembrane protein 54

    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_001290706.1 → NP_001277635.1  transmembrane protein 54 isoform 3

      See identical proteins and their annotated locations for NP_001277635.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate splice site in the 3' terminal exon, compared to variant 1. It encodes isoform 3, which is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AK007525, AK008935, AK009830, BY079646, BY092384
      Consensus CDS
      CCDS71472.1
      UniProtKB/TrEMBL
      A2A7R2, Q9D6Y3
      Related
      ENSMUSP00000030577.4, ENSMUST00000030577.11
      Conserved Domains (1) summary
      pfam12304
      Location:18 → 197
      BCLP; Beta-casein like protein

    2. NM_025452.4 → NP_079728.2  transmembrane protein 54 isoform 1

      See identical proteins and their annotated locations for NP_079728.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the shorter transcript but encodes the longer isoform (1).
      Source sequence(s)
      AK008935, AL606977, BQ032787, BY092384
      Consensus CDS
      CCDS18681.1
      UniProtKB/Swiss-Prot
      A2A7R3, Q8VCL0, Q9D7S1
      UniProtKB/TrEMBL
      Q9D6Y3
      Related
      ENSMUSP00000101679.4, ENSMUST00000106064.10
      Conserved Domains (1) summary
      pfam12304
      Location:18 → 197
      BCLP; Beta-casein like protein

    3. NM_133881.1 → NP_598642.1  transmembrane protein 54 isoform 2

      See identical proteins and their annotated locations for NP_598642.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has multiple differences in the coding region, compared to variant 1. It encodes isoform 2 which is shorter than isoform 1.
      Source sequence(s)
      AK009830, AL606977, BQ032787, BY092384
      Consensus CDS
      CCDS57298.1
      UniProtKB/TrEMBL
      A2A7R1, Q9D6Y3
      Related
      ENSMUSP00000030575.9, ENSMUST00000030575.15
      Conserved Domains (1) summary
      pfam12304
      Location:18 → 177
      BCLP; Beta-casein like protein

    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_000070.7 Reference GRCm39 C57BL/6J

      Range
      128999321..129005419
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006503270.5 → XP_006503333.1  transmembrane protein 54 isoform X1

      See identical proteins and their annotated locations for XP_006503333.1

      UniProtKB/TrEMBL
      Q9D6Y3
      Conserved Domains (1) summary
      pfam12304
      Location:18 → 177
      BCLP; Beta-casein like protein
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9D7S1.1 GenPept UniProtKB/Swiss-Prot:Q9D7S1

    Gene LinkOut

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

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