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    Tnfrsf13c tumor necrosis factor receptor superfamily, member 13c [ Mus musculus (house mouse) ]

    Gene ID: 72049, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Tnfrsf13cprovided by MGI
    Official Full Name
    tumor necrosis factor receptor superfamily, member 13cprovided by MGI
    Primary source
    MGI:MGI:1919299
    See related
    Ensembl:ENSMUSG00000068105 AllianceGenome:MGI:1919299
    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
    Bcmd; Baffr; Bcmd1; BAFF-R; Bcmd-1; Lvis22; 2010006P15Rik
    Summary
    Predicted to enable signaling receptor activity. Acts upstream of or within several processes, including positive regulation of germinal center formation; positive regulation of lymphocyte activation; and positive regulation of type II interferon production. Located in external side of plasma membrane. Is expressed in genitourinary system; hemolymphoid system gland; lung; and retina. Human ortholog(s) of this gene implicated in common variable immunodeficiency 4. Orthologous to human TNFRSF13C (TNF receptor superfamily member 13C). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in spleen adult (RPKM 37.8), testis adult (RPKM 10.4) and 3 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Tnfrsf13c in Genome Data Viewer
    Location:
    15 E1; 15 38.56 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (82105943..82108581, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (82221742..82224380, complement)

    Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene sterol regulatory element binding factor 2 Neighboring gene microRNA 33 Neighboring gene shisa family member 8 Neighboring gene STARR-positive B cell enhancer ABC_E2448 Neighboring gene centromere protein M Neighboring gene STARR-positive B cell enhancer ABC_E8601 Neighboring gene STARR-seq mESC enhancer starr_39290 Neighboring gene small integral membrane protein 45 Neighboring gene predicted gene, 52180

    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. Lupus serum IgG induces microglia activation through Fc fragment dependent way and modulated by B-cell activating factor. Yang C, et al. J Transl Med, 2019 Dec 21. PMID 31864410, Free PMC Article
    2. BAFF receptor deficiency limits gammaherpesvirus infection. Frederico B, et al. J Virol, 2014 Apr. PMID 24501409, Free PMC Article
    3. Systemic autoimmunity in BAFF-R-mutant A/WySnJ strain mice. Mayne CG, et al. Eur J Immunol, 2008 Feb. PMID 18200501, Free PMC Article
    4. Monoclonal MOG-reactive autoantibody from progressive EAE has the characteristics of a natural antibody. Libbey JE, et al. J Neuroimmunol, 2006 Apr. PMID 16469392
    5. TNF family member B cell-activating factor (BAFF) receptor-dependent and -independent roles for BAFF in B cell physiology. Sasaki Y, et al. J Immunol, 2004 Aug 15. PMID 15294936

    See all (110) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Transcriptome Analysis of BAFF/BAFF-R System in Murine Nephrotoxic Serum Nephritis.
      Title: Transcriptome Analysis of BAFF/BAFF-R System in Murine Nephrotoxic Serum Nephritis.
    2. Transcriptome analysis of renal ischemia/reperfusion (I/R) injury in BAFF and BAFF-R deficient mice.
      Title: Transcriptome analysis of renal ischemia/reperfusion (I/R) injury in BAFF and BAFF-R deficient mice.
    3. B Cell and T Cell Dissimilarities in BAFF-Deficient versus BR3-Deficient C57BL/6 Mice.
      Title: B Cell and T Cell Dissimilarities in BAFF-Deficient versus BR3-Deficient C57BL/6 Mice.
    4. Analysis of lncRNA and mRNA Repertoires in Lung From BAFF-R-Deficient Pneumocystis-Infected Mice.
      Title: Analysis of lncRNA and mRNA Repertoires in Lung From BAFF-R-Deficient Pneumocystis-Infected Mice.
    5. B cell-activating factor modulates the factor VIII immune response in hemophilia A.
      Title: B cell-activating factor modulates the factor VIII immune response in hemophilia A.
    6. BAFFR controls early memory B cell responses but is dispensable for germinal center function.
      Title: BAFFR controls early memory B cell responses but is dispensable for germinal center function.
    7. Critical requirement for BCR, BAFF, and BAFFR in memory B cell survival.
      Title: Critical requirement for BCR, BAFF, and BAFFR in memory B cell survival.
    8. Effects of B cell-activating factor on tumor immunity.
      Title: Effects of B cell-activating factor on tumor immunity.
    9. Effects of BAFF Neutralization on Atherosclerosis Associated With Systemic Lupus Erythematosus.
      Title: Effects of BAFF Neutralization on Atherosclerosis Associated With Systemic Lupus Erythematosus.
    10. A novel BAFF antagonist, BAFF-Trap, effectively alleviates the disease progression of systemic lupus erythematosus in MRL/lpr mice.
      Title: A novel BAFF antagonist, BAFF-Trap, effectively alleviates the disease progression of systemic lupus erythematosus in MRL/lpr mice.
    Submit: New GeneRIF Correction See all GeneRIFs (59)

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Chemically induced (ENU) (2) 
    • Endonuclease-mediated (5) 
    • Spontaneous (1)  1 citation
    • Targeted (3)  1 citation

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC123890, MGC123891

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables signaling receptor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in B cell costimulation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within B cell costimulation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within B cell homeostasis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of B cell proliferation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in T cell costimulation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within T cell costimulation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within T cell costimulation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of T cell proliferation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of T cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of germinal center formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of B cell proliferation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within positive regulation of B cell proliferation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of T cell proliferation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within positive regulation of T cell proliferation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of T cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of germinal center formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of type II interferon production IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of immune response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in tumor necrosis factor-mediated signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in external side of plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in external side of plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    tumor necrosis factor receptor superfamily member 13C
    Names
    B-cell maturation defect 1
    B-cell-activating factor receptor
    BAFF receptor
    BLyS receptor 3
    b cell-activating factor receptor

    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_001357758.1 → NP_001344687.1  tumor necrosis factor receptor superfamily member 13C isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: his variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.
      Source sequence(s)
      AC104325
      Consensus CDS
      CCDS88811.1
      UniProtKB/TrEMBL
      Q3SXS7, Q8R4W8
      Related
      ENSMUSP00000154899.2, ENSMUST00000231049.2
      Conserved Domains (2) summary
      pfam09256
      Location:19 → 48
      BaffR-Tall_bind; BAFF-R, TALL-1 binding
      cl22855
      Location:135 → 159
      TNFRSF; Tumor necrosis factor receptor superfamily (TNFRSF)

    2. NM_028075.3 → NP_082351.1  tumor necrosis factor receptor superfamily member 13C isoform 1

      See identical proteins and their annotated locations for NP_082351.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AC104325
      Consensus CDS
      CCDS27684.1
      UniProtKB/Swiss-Prot
      Q9D8D0
      UniProtKB/TrEMBL
      Q3SXS6, Q8R4W8
      Related
      ENSMUSP00000086564.3, ENSMUST00000089161.10
      Conserved Domains (2) summary
      pfam09256
      Location:19 → 48
      BaffR-Tall_bind; BAFF-R, TALL-1 binding
      cl22855
      Location:146 → 170
      TNFRSF; Tumor necrosis factor receptor superfamily (TNFRSF)

    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_000081.7 Reference GRCm39 C57BL/6J

      Range
      82105943..82108581 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9D8D0.1 GenPept UniProtKB/Swiss-Prot:Q9D8D0

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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