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    Rtl5 retrotransposon Gag like 5 [ Mus musculus (house mouse) ]

    Gene ID: 331474, updated on 12-May-2024

    Summary

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    Official Symbol
    Rtl5provided by MGI
    Official Full Name
    retrotransposon Gag like 5provided by MGI
    Primary source
    MGI:MGI:3045324
    See related
    Ensembl:ENSMUSG00000049191 AllianceGenome:MGI:3045324
    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
    Mar5; Mart5; Rgag4; mKIAA2001; 6430402L03Rik
    Summary
    Is expressed in several structures, including central nervous system; gonad; immune system; liver; and lung. Orthologous to human RTL5 (retrotransposon Gag like 5). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in CNS E14 (RPKM 20.5), whole brain E14.5 (RPKM 20.2) and 15 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Rtl5 in Genome Data Viewer
    Location:
    X D; X 45.06 cM
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (101110148..101114942, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (102066542..102071307, complement)

    Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene H3.3 histone A, pseudogene 1 Neighboring gene STARR-seq mESC enhancer starr_47663 Neighboring gene STARR-seq mESC enhancer starr_47664 Neighboring gene NHS like 2 Neighboring gene predicted gene, 25828 Neighboring gene STARR-seq mESC enhancer starr_47665 Neighboring gene STARR-seq mESC enhancer starr_47666 Neighboring gene STARR-positive B cell enhancer ABC_E5732 Neighboring gene peptidyl-prolyl cis/trans isomerase, NIMA-interacting, 4 (parvulin) Neighboring gene high mobility group protein B1 pseudogene

    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. The retrotransposon gag domain containing protein Rgag4 is an Ikaros target in the pituitary. Shen Z, et al. Mol Cell Endocrinol, 2018 Feb 5. PMID 28919299
    2. Retrovirus-derived RTL5 and RTL6 genes are novel constituents of the innate immune system in the eutherian brain. Irie M, et al. Development, 2022 Sep 15. PMID 36162816, Free PMC Article
    3. A small family of sushi-class retrotransposon-derived genes in mammals and their relation to genomic imprinting. Youngson NA, et al. J Mol Evol, 2005 Oct. PMID 16155747
    4. Transposable elements as a source of genetic innovation: expression and evolution of a family of retrotransposon-derived neogenes in mammals. Brandt J, et al. Gene, 2005 Jan 17. PMID 15716091
    5. A family of neofunctionalized Ty3/gypsy retrotransposon genes in mammalian genomes. Brandt J, et al. Cytogenet Genome Res, 2005. PMID 16093683

    See all (15) 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)

    General gene information

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    Homology

    Clone Names

    • KIAA2001

    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
    		  

    General protein information

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    Preferred Names
    retrotransposon Gag-like protein 5
    Names
    gag-like protein
    retrotransposon gag domain containing 4
    retrotransposon gag domain-containing protein 4

    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_001278534.2 → NP_001265463.1  retrotransposon Gag-like protein 5

      See identical proteins and their annotated locations for NP_001265463.1

      Status: VALIDATED

      Source sequence(s)
      AL807784
      Consensus CDS
      CCDS30320.1
      UniProtKB/Swiss-Prot
      Q5DTT4
      UniProtKB/TrEMBL
      Q8C065
      Related
      ENSMUSP00000133001.2, ENSMUST00000119076.9
      Conserved Domains (1) summary
      cl29674
      Location:157 → 234
      Retrotrans_gag; Retrotransposon gag 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_000086.8 Reference GRCm39 C57BL/6J

      Range
      101110148..101114942 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006528101.3 → XP_006528164.1  retrotransposon Gag-like protein 5 isoform X1

      See identical proteins and their annotated locations for XP_006528164.1

      UniProtKB/Swiss-Prot
      Q5DTT4
      UniProtKB/TrEMBL
      Q8C065
      Related
      ENSMUSP00000109261.2, ENSMUST00000113631.2
      Conserved Domains (1) summary
      cl29674
      Location:157 → 234
      Retrotrans_gag; Retrotransposon gag protein

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_183318.4: Suppressed sequence

      Description
      NM_183318.4: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5DTT4.2 GenPept UniProtKB/Swiss-Prot:Q5DTT4

    Gene LinkOut

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

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