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

Gene ID: 66260, updated on 2-Nov-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. 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, Nov 2024]
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 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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