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

Gene ID: 331474, updated on 21-Apr-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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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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