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Rtl9 retrotransposon Gag like 9 [ Mus musculus (house mouse) ]

Gene ID: 209540, updated on 5-Mar-2024

Summary

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Official Symbol
Rtl9provided by MGI
Official Full Name
retrotransposon Gag like 9provided by MGI
Primary source
MGI:MGI:2685231
See related
Ensembl:ENSMUSG00000085584 AllianceGenome:MGI:2685231
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
Mar9; Gm385; Mart9; Rgag1
Summary
Is expressed in brain. Orthologous to human RTL9 (retrotransposon Gag like 9). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Low expression observed in reference dataset See more
Orthologs
human all
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Genomic context

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See Rtl9 in Genome Data Viewer
Location:
X F2; X 64.02 cM
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (141841655..141888326)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (143058276..143105330)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene transmembrane protein 164 Neighboring gene POU domain, class 5, transcription factor 1, related sequence 13 Neighboring gene STARR-seq mESC enhancer starr_48025 Neighboring gene AMMECR nuclear protein 1 Neighboring gene STARR-seq mESC enhancer starr_48026 Neighboring gene STARR-seq mESC enhancer starr_48027 Neighboring gene STARR-seq mESC enhancer starr_48028 Neighboring gene STARR-seq mESC enhancer starr_48029 Neighboring gene actin, beta pseudogene Neighboring gene STARR-seq mESC enhancer starr_48030 Neighboring gene chordin-like 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. 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
  2. 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
  3. A family of neofunctionalized Ty3/gypsy retrotransposon genes in mammalian genomes. Brandt J, et al. Cytogenet Genome Res, 2005. PMID 16093683
  4. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article
  5. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Clone Names

  • KIAA1318, mKIAA1318

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 9
Names
retrotransposon gag domain containing 1
retrotransposon gag domain-containing protein 1
sushi-XF2

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_001040434.2 → NP_001035524.2  retrotransposon Gag-like protein 9

    See identical proteins and their annotated locations for NP_001035524.2

    Status: VALIDATED

    Source sequence(s)
    AK220382, AL731548
    Consensus CDS
    CCDS72442.1
    UniProtKB/Swiss-Prot
    Q32KG4, Q5DTY8
    Related
    ENSMUSP00000128287.2, ENSMUST00000165829.4
    Conserved Domains (3) summary
    PHA03247
    Location:787 → 1141
    PHA03247; large tegument protein UL36; Provisional
    pfam05109
    Location:136 → 461
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    cl29674
    Location:1169 → 1260
    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
    141841655..141888326
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011247808.3 → XP_011246110.1  retrotransposon Gag-like protein 9 isoform X1

    See identical proteins and their annotated locations for XP_011246110.1

    UniProtKB/Swiss-Prot
    Q32KG4, Q5DTY8
    Conserved Domains (3) summary
    PHA03247
    Location:787 → 1141
    PHA03247; large tegument protein UL36; Provisional
    pfam05109
    Location:136 → 461
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    cl29674
    Location:1169 → 1260
    Retrotrans_gag; Retrotransposon gag protein

  2. XM_011247807.3 → XP_011246109.1  retrotransposon Gag-like protein 9 isoform X1

    See identical proteins and their annotated locations for XP_011246109.1

    UniProtKB/Swiss-Prot
    Q32KG4, Q5DTY8
    Conserved Domains (3) summary
    PHA03247
    Location:787 → 1141
    PHA03247; large tegument protein UL36; Provisional
    pfam05109
    Location:136 → 461
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    cl29674
    Location:1169 → 1260
    Retrotrans_gag; Retrotransposon gag protein
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q32KG4.1 GenPept UniProtKB/Swiss-Prot:Q32KG4

Gene LinkOut

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