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    Tlcd4 TLC domain containing 4 [ Mus musculus (house mouse) ]

    Gene ID: 99887, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Tlcd4provided by MGI
    Official Full Name
    TLC domain containing 4provided by MGI
    Primary source
    MGI:MGI:1923195
    See related
    Ensembl:ENSMUSG00000028132 AllianceGenome:MGI:1923195
    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
    Tmem56; 4930577M16Rik; C730036B01Rik
    Summary
    Predicted to be involved in lipid homeostasis. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be active in endoplasmic reticulum. Is expressed in cerebellum and liver. Orthologous to several human genes including TLCD4 (TLC domain containing 4). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in testis adult (RPKM 12.1), liver adult (RPKM 10.0) and 18 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Tlcd4 in Genome Data Viewer
    Location:
    3 G1; 3 52.94 cM
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (120995657..121076756, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (121202008..121283108, complement)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E4583 Neighboring gene RWD domain containing 3 Neighboring gene predicted gene 10652 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene Neighboring gene STARR-seq mESC enhancer starr_08837 Neighboring gene predicted gene, 52661 Neighboring gene within bgcn homolog pseudogene Neighboring gene STARR-seq mESC enhancer starr_08838 Neighboring gene STARR-positive B cell enhancer ABC_E4584 Neighboring gene STARR-positive B cell enhancer mm9_chr3:121010508-121010808 Neighboring gene asparagine-linked glycosylation 14 Neighboring gene STARR-positive B cell enhancer ABC_E11213 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:121047938-121048139 Neighboring gene predicted gene, 33310 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:121068079-121068270 Neighboring gene STARR-positive B cell enhancer mm9_chr3:121072387-121072688 Neighboring gene STARR-positive B cell enhancer mm9_chr3:121073107-121073408 Neighboring gene STARR-seq mESC enhancer starr_08839 Neighboring gene predicted gene, 33363 Neighboring gene peptidylprolyl isomerase A pseudogene 3_1234.1

    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. Investigation of differentially expressed genes during the development of mouse cerebellum. Kagami Y, et al. Brain Res Gene Expr Patterns, 2001 Aug. PMID 15018818
    2. GUDMAP: the genitourinary developmental molecular anatomy project. McMahon AP, et al. J Am Soc Nephrol, 2008 Apr. PMID 18287559
    3. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249
    4. BGEM: an in situ hybridization database of gene expression in the embryonic and adult mouse nervous system. Magdaleno S, et al. PLoS Biol, 2006 Apr. PMID 16602821, Free PMC Article
    5. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article

    See all (17) 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) 
    • Endonuclease-mediated (3) 

    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
    		  

    General protein information

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    Preferred Names
    TLC domain-containing protein 4
    Names
    transmembrane protein 56

    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_001355678.2 → NP_001342607.2  TLC domain-containing protein 4

      Status: VALIDATED

      Source sequence(s)
      AC110195
      Related
      ENSMUSP00000119468.2, ENSMUST00000128909.8
      Conserved Domains (1) summary
      smart00724
      Location:45 → 246
      TLC; TRAM, LAG1 and CLN8 homology domains

    2. NM_178936.4 → NP_849267.2  TLC domain-containing protein 4

      Status: VALIDATED

      Source sequence(s)
      AC110195
      Related
      ENSMUSP00000029777.8, ENSMUST00000029777.14
      Conserved Domains (1) summary
      smart00724
      Location:45 → 246
      TLC; TRAM, LAG1 and CLN8 homology domains

    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
      120995657..121076756 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006502478.3 → XP_006502541.1  TLC domain-containing protein 4 isoform X1

      See identical proteins and their annotated locations for XP_006502541.1

      UniProtKB/Swiss-Prot
      Q8CGF5, Q9D4Q8
      Conserved Domains (1) summary
      smart00724
      Location:58 → 259
      TLC; TRAM, LAG1 and CLN8 homology domains

    2. XM_011240340.2 → XP_011238642.1  TLC domain-containing protein 4 isoform X1

      See identical proteins and their annotated locations for XP_011238642.1

      UniProtKB/Swiss-Prot
      Q8CGF5, Q9D4Q8
      Conserved Domains (1) summary
      smart00724
      Location:58 → 259
      TLC; TRAM, LAG1 and CLN8 homology domains

    3. XM_011240337.2 → XP_011238639.1  TLC domain-containing protein 4 isoform X1

      See identical proteins and their annotated locations for XP_011238639.1

      UniProtKB/Swiss-Prot
      Q8CGF5, Q9D4Q8
      Conserved Domains (1) summary
      smart00724
      Location:58 → 259
      TLC; TRAM, LAG1 and CLN8 homology domains

    4. XM_030252956.2 → XP_030108816.1  TLC domain-containing protein 4 isoform X1

      UniProtKB/Swiss-Prot
      Q8CGF5, Q9D4Q8
      Conserved Domains (1) summary
      smart00724
      Location:58 → 259
      TLC; TRAM, LAG1 and CLN8 homology domains

    5. XM_006502480.5 → XP_006502543.1  TLC domain-containing protein 4 isoform X1

      See identical proteins and their annotated locations for XP_006502543.1

      UniProtKB/Swiss-Prot
      Q8CGF5, Q9D4Q8
      Related
      ENSMUSP00000120821.2, ENSMUST00000155309.8
      Conserved Domains (1) summary
      smart00724
      Location:58 → 259
      TLC; TRAM, LAG1 and CLN8 homology domains

    6. XM_011240339.2 → XP_011238641.1  TLC domain-containing protein 4 isoform X1

      See identical proteins and their annotated locations for XP_011238641.1

      UniProtKB/Swiss-Prot
      Q8CGF5, Q9D4Q8
      Conserved Domains (1) summary
      smart00724
      Location:58 → 259
      TLC; TRAM, LAG1 and CLN8 homology domains

    7. XM_017319841.3 → XP_017175330.1  TLC domain-containing protein 4 isoform X2

      UniProtKB/TrEMBL
      D3Z3E6
      Related
      ENSMUSP00000122001.2, ENSMUST00000137234.2
      Conserved Domains (1) summary
      cl02759
      Location:58 → 171
      TRAM_LAG1_CLN8; TLC domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8CGF5.1 GenPept UniProtKB/Swiss-Prot:Q8CGF5

    Gene LinkOut

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

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