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    Tlcd3a TLC domain containing 3A [ Mus musculus (house mouse) ]

    Gene ID: 116972, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Tlcd3aprovided by MGI
    Official Full Name
    TLC domain containing 3Aprovided by MGI
    Primary source
    MGI:MGI:2151840
    See related
    Ensembl:ENSMUSG00000069808 AllianceGenome:MGI:2151840
    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
    Wdt3; Fam57a; 2310047D13Rik; 4932415L08Rik; 5430402E13Rik; 5430420K21Rik
    Summary
    Predicted to be involved in lipid homeostasis. Predicted to be located in plasma membrane. Predicted to be active in endoplasmic reticulum. Is expressed in thymus primordium. Orthologous to human TLCD3A (TLC domain containing 3A). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in stomach adult (RPKM 61.2), lung adult (RPKM 23.0) and 16 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    11 B5; 11 45.92 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (76070497..76100243)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (76179671..76209417)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene refilin B Neighboring gene STARR-seq mESC enhancer starr_30013 Neighboring gene VPS53 GARP complex subunit Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:75920753-75920862 Neighboring gene predicted gene, 46252 Neighboring gene STARR-positive B cell enhancer ABC_E8426 Neighboring gene gem nuclear organelle associated protein 4 Neighboring gene diazepam binding inhibitor-like 5

    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. Laser capture microdissection-based expression profiling identifies PD1-ligand as a target of the nude locus gene product. Bleul CC, et al. Eur J Immunol, 2001 Aug. PMID 11500834
    2. A collection of cDNAs enriched in upper cortical layers of the embryonic mouse brain. García-Frigola C, et al. Brain Res Mol Brain Res, 2004 Mar 30. PMID 15010206
    3. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
    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. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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 lipid homeostasis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in endoplasmic reticulum IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in 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
    TLC domain-containing protein 3A
    Names
    family with sequence similarity 57, member A
    protein FAM57A
    whn-dependent transcript 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_001384091.1 → NP_001371020.1  TLC domain-containing protein 3A isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3), as well as variant 4, encodes isoform b.
      Source sequence(s)
      AL591129
      UniProtKB/TrEMBL
      B7ZC15
      Conserved Domains (1) summary
      cl02759
      Location:1 → 166
      TRAM_LAG1_CLN8; TLC domain

    2. NM_001384092.1 → NP_001371021.1  TLC domain-containing protein 3A isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4), as well as variant 3, encodes isoform b.
      Source sequence(s)
      AL591129
      UniProtKB/TrEMBL
      B7ZC15
      Related
      ENSMUSP00000114936.2, ENSMUST00000129853.8
      Conserved Domains (1) summary
      cl02759
      Location:1 → 166
      TRAM_LAG1_CLN8; TLC domain

    3. NM_027773.4 → NP_082049.1  TLC domain-containing protein 3A isoform a

      See identical proteins and their annotated locations for NP_082049.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (a).
      Source sequence(s)
      AL591129
      Consensus CDS
      CCDS36230.1
      UniProtKB/Swiss-Prot
      Q5ND56
      UniProtKB/TrEMBL
      E9Q1B2, Q3TVE0
      Related
      ENSMUSP00000091553.4, ENSMUST00000094014.10
      Conserved Domains (1) summary
      smart00724
      Location:39 → 249
      TLC; TRAM, LAG1 and CLN8 homology domains

    RNA

    1. NR_165039.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL591129

    2. NR_168712.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL591129

    3. NR_168713.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL591129

    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_000077.7 Reference GRCm39 C57BL/6J

      Range
      76070497..76100243
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017314228.2 → XP_017169717.1  TLC domain-containing protein 3A isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5ND56.1 GenPept UniProtKB/Swiss-Prot:Q5ND56

    Gene LinkOut

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

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