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    Xlr4a X-linked lymphocyte-regulated 4A [ Mus musculus (house mouse) ]

    Gene ID: 434794, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Xlr4aprovided by MGI
    Official Full Name
    X-linked lymphocyte-regulated 4Aprovided by MGI
    Primary source
    MGI:MGI:3574098
    See related
    Ensembl:ENSMUSG00000079845 AllianceGenome:MGI:3574098
    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
    Summary
    Acts upstream of or within dendritic spine organization; dopamine secretion; and response to cocaine. Predicted to be active in synaptonemal complex. Is expressed in hindgut diverticulum and yolk sac. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in placenta adult (RPKM 24.2), thymus adult (RPKM 4.1) and 3 other tissues See more
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    Genomic context

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    See Xlr4a in Genome Data Viewer
    Location:
    X A7.3; X 37.29 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (72117949..72126133, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (73074343..73082527, complement)

    Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_47341 Neighboring gene paraneoplastic antigen MA3 pseudogene Neighboring gene paraneoplastic antigen MA3 Neighboring gene X-linked lymphocyte-regulated 3A Neighboring gene X-linked lymphocyte-regulated 5A Neighboring gene PWWP domain containing 4A

    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. Xlr4 as a new candidate gene underlying vulnerability to cocaine effects. Di Segni M, et al. Neuropharmacology, 2020 May 15. PMID 32113966
    2. Xlr3b is a new imprinted candidate for X-linked parent-of-origin effects on cognitive function in mice. Davies W, et al. Nat Genet, 2005 Jun. PMID 15908950
    3. Identification of a cluster of X-linked imprinted genes in mice. Raefski AS, et al. Nat Genet, 2005 Jun. PMID 15908953
    4. Integrated microarray and ChIP analysis identifies multiple Foxa2 dependent target genes in the notochord. Tamplin OJ, et al. Dev Biol, 2011 Dec 15. PMID 22008794
    5. USP7 represses lineage differentiation genes in mouse embryonic stem cells by both catalytic and noncatalytic activities. Liu C, et al. Sci Adv, 2023 May 19. PMID 37196079, Free PMC Article

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Xlr4 as a new candidate gene underlying vulnerability to cocaine effects.
      Title: Xlr4 as a new candidate gene underlying vulnerability to cocaine effects.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC106987

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within dendritic spine organization IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within dopamine secretion IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in meiotic cell cycle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within response to cocaine IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in spermatid development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in synaptonemal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    X-linked lymphocyte-regulated 4A

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    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_001081642.1 → NP_001075111.1  X-linked lymphocyte-regulated 4A

      See identical proteins and their annotated locations for NP_001075111.1

      Status: VALIDATED

      Source sequence(s)
      BX813330
      Consensus CDS
      CCDS41005.1
      UniProtKB/TrEMBL
      A2BI40, Q4QQJ8
      Related
      ENSMUSP00000077831.7, ENSMUST00000078775.13
      Conserved Domains (1) summary
      pfam04803
      Location:60 → 187
      Cor1; Cor1/Xlr/Xmr conserved region

    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
      72117949..72126133 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017318541.2 → XP_017174030.1  X-linked lymphocyte-regulated 4A isoform X1

      UniProtKB/TrEMBL
      A2BI40, Q4QQJ8
      Conserved Domains (1) summary
      pfam04803
      Location:60 → 187
      Cor1; Cor1/Xlr/Xmr conserved region

    2. XM_017318542.2 → XP_017174031.1  X-linked lymphocyte-regulated 4A isoform X1

      UniProtKB/TrEMBL
      A2BI40, Q4QQJ8
      Conserved Domains (1) summary
      pfam04803
      Location:60 → 187
      Cor1; Cor1/Xlr/Xmr conserved region

    3. XM_006528121.3 → XP_006528184.1  X-linked lymphocyte-regulated 4A isoform X1

      See identical proteins and their annotated locations for XP_006528184.1

      UniProtKB/TrEMBL
      A2BI40, Q4QQJ8
      Conserved Domains (1) summary
      pfam04803
      Location:60 → 187
      Cor1; Cor1/Xlr/Xmr conserved region

    4. XM_011247627.2 → XP_011245929.1  X-linked lymphocyte-regulated 4A isoform X1

      See identical proteins and their annotated locations for XP_011245929.1

      UniProtKB/TrEMBL
      A2BI40, Q4QQJ8
      Conserved Domains (1) summary
      pfam04803
      Location:60 → 187
      Cor1; Cor1/Xlr/Xmr conserved region

    5. XM_006528120.5 → XP_006528183.1  X-linked lymphocyte-regulated 4A isoform X1

      See identical proteins and their annotated locations for XP_006528183.1

      UniProtKB/TrEMBL
      A2BI40, Q4QQJ8
      Conserved Domains (1) summary
      pfam04803
      Location:60 → 187
      Cor1; Cor1/Xlr/Xmr conserved region

    6. XM_006528119.4 → XP_006528182.1  X-linked lymphocyte-regulated 4A isoform X1

      See identical proteins and their annotated locations for XP_006528182.1

      UniProtKB/TrEMBL
      A2BI40, Q4QQJ8
      Conserved Domains (1) summary
      pfam04803
      Location:60 → 187
      Cor1; Cor1/Xlr/Xmr conserved region

    7. XM_017318540.2 → XP_017174029.1  X-linked lymphocyte-regulated 4A isoform X1

      UniProtKB/TrEMBL
      A2BI40, Q4QQJ8
      Conserved Domains (1) summary
      pfam04803
      Location:60 → 187
      Cor1; Cor1/Xlr/Xmr conserved region
    Nucleotide Protein Strain
    Heading Accession and Version

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