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

Gene ID: 319581, updated on 30-Apr-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, 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 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
  • 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. 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
  3. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
  4. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636
  5. RIKEN integrated sequence analysis (RISA) system--384-format sequencing pipeline with 384 multicapillary sequencer. Shibata K, et al. Genome Res, 2000 Nov. PMID 11076861, Free PMC Article

See all (11) 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
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
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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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

Gene LinkOut

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