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    Xkr5 X-linked Kx blood group related 5 [ Mus musculus (house mouse) ]

    Gene ID: 319581, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Xkr5provided by MGI
    Official Full Name
    X-linked Kx blood group related 5provided by MGI
    Primary source
    MGI:MGI:2442327
    See related
    Ensembl:ENSMUSG00000039814 AllianceGenome:MGI:2442327
    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
    XRG5; 5430438H03Rik
    Summary
    Predicted to be involved in apoptotic process involved in development; engulfment of apoptotic cell; and phosphatidylserine exposure on apoptotic cell surface. Is active in plasma membrane. Orthologous to human XKR5 (XK related 5). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Low expression observed in reference dataset See more
    Orthologs
    human all
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    Genomic context

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    See Xkr5 in Genome Data Viewer
    Location:
    8 A1.3; 8 10.33 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (18974172..19001126, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (18924152..18951105, complement)

    Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer mm9_chr8:18846064-18846365 Neighboring gene STARR-seq mESC enhancer starr_20847 Neighboring gene 1-acylglycerol-3-phosphate O-acyltransferase 5 Neighboring gene STARR-seq mESC enhancer starr_20849 Neighboring gene CapStarr-seq enhancer MGSCv37_chr8:18899079-18899188 Neighboring gene predicted gene, 35934 Neighboring gene STARR-seq mESC enhancer starr_20852 Neighboring gene STARR-positive B cell enhancer ABC_E4991 Neighboring gene predicted gene, 40464 Neighboring gene defensin beta 40 Neighboring gene defensin beta 37 Neighboring gene predicted gene, 39138

    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 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. Exposure of phosphatidylserine by Xk-related protein family members during apoptosis. Suzuki J, et al. J Biol Chem, 2014 Oct 31. PMID 25231987, Free PMC Article
    2. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, Free PMC Article
    3. 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
    4. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    5. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636

    See all (12) 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 (2) 

    General gene information

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    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 apoptotic process involved in development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in engulfment of apoptotic cell IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in phosphatidylserine exposure on apoptotic cell surface IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    XK-related protein 5
    Names
    X Kell blood group precursor-related family, member 5

    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_001113350.2 → NP_001106821.1  XK-related protein 5 isoform a

      See identical proteins and their annotated locations for NP_001106821.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (a).
      Source sequence(s)
      AY534251
      Consensus CDS
      CCDS52495.1
      UniProtKB/Swiss-Prot
      Q5GH66
      Related
      ENSMUSP00000093089.4, ENSMUST00000095438.10
      Conserved Domains (1) summary
      pfam09815
      Location:16 → 321
      XK-related; XK-related protein

    2. NM_001286469.1 → NP_001273398.1  XK-related protein 5 isoform c

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. This encodes isoform c, which has a shorter and distinct N-terminus, compared to isoform a.
      Source sequence(s)
      AC119161, AK045098, AY534251
      UniProtKB/Swiss-Prot
      Q5GH66
      UniProtKB/TrEMBL
      Q8BG78
      Related
      ENSMUST00000144987.8
      Conserved Domains (1) summary
      pfam09815
      Location:11 → 311
      XK-related; XK-related protein

    3. NM_176951.5 → NP_795925.1  XK-related protein 5 isoform b

      See identical proteins and their annotated locations for NP_795925.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. This encodes isoform b, which has a shorter N-terminus, compared to isoform a.
      Source sequence(s)
      AK045098, AY534251
      Consensus CDS
      CCDS40245.1
      UniProtKB/TrEMBL
      Q0VFY4, Q8BG78
      Related
      ENSMUSP00000061748.6, ENSMUST00000055503.12
      Conserved Domains (1) summary
      pfam09815
      Location:2 → 155
      XK-related; XK-related 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_000074.7 Reference GRCm39 C57BL/6J

      Range
      18974172..19001126 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006508818.5 → XP_006508881.1  XK-related protein 5 isoform X3

      Conserved Domains (1) summary
      pfam09815
      Location:16 → 307
      XK-related; XK-related protein

    2. XM_006508817.4 → XP_006508880.1  XK-related protein 5 isoform X1

      See identical proteins and their annotated locations for XP_006508880.1

      UniProtKB/TrEMBL
      Q0VFY4, Q8BG78
      Conserved Domains (1) summary
      pfam09815
      Location:2 → 155
      XK-related; XK-related protein

    3. XM_011242065.4 → XP_011240367.1  XK-related protein 5 isoform X2

      Conserved Domains (1) summary
      pfam09815
      Location:16 → 307
      XK-related; XK-related protein
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5GH66.1 GenPept UniProtKB/Swiss-Prot:Q5GH66

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