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    Tnfsf13 TNF superfamily member 13 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 287437, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Tnfsf13provided by RGD
    Official Full Name
    TNF superfamily member 13provided by RGD
    Primary source
    RGD:1305871
    See related
    Ensembl:ENSRNOG00000014171 AllianceGenome:RGD:1305871
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    April; Tnlg7b
    Summary
    Predicted to enable receptor ligand activity. Predicted to be involved in positive regulation of isotype switching to IgA isotypes. Predicted to act upstream of or within immunoglobulin mediated immune response; positive regulation of cell population proliferation; and positive regulation of germinal center formation. Predicted to be located in cytoplasm and external side of plasma membrane. Predicted to be active in extracellular space. Human ortholog(s) of this gene implicated in B-lymphoblastic leukemia/lymphoma. Orthologous to human TNFSF13 (TNF superfamily member 13). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Lung (RPKM 100.1), Kidney (RPKM 97.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    10q24
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (54898805..54901815, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (54400054..54403723, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (56286964..56290680, complement)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA48 Neighboring gene eukaryotic translation initiation factor 4A1 Neighboring gene eukaryotic translation initiation factor 4A1 like Neighboring gene SUMO specific peptidase 3 Neighboring gene TNF superfamily member 12 Neighboring gene ribosomal protein L13, pseudogene 19

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. APRIL/BLyS deficient rats prevent donor specific antibody (DSA) production and cell proliferation in rodent kidney transplant model. Bath NM, et al. PLoS One, 2022. PMID 36227902, Free PMC Article
    2. APRIL promotes proliferation, secretion and invasion of fibroblast-like synoviocyte from rats with adjuvant induced arthritis. Chang Y, et al. Mol Immunol, 2015 Mar. PMID 25466610
    3. APRIL-deficient mice have normal immune system development. Varfolomeev E, et al. Mol Cell Biol, 2004 Feb. PMID 14729948, Free PMC Article
    4. APRIL promotes B-1 cell-associated neoplasm. Planelles L, et al. Cancer Cell, 2004 Oct. PMID 15488762
    5. Adipocytes as immune cells: differential expression of TWEAK, BAFF, and APRIL and their receptors (Fn14, BAFF-R, TACI, and BCMA) at different stages of normal and pathological adipose tissue development. Alexaki VI, et al. J Immunol, 2009 Nov 1. PMID 19828625

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. APRIL/BLyS deficient rats prevent donor specific antibody (DSA) production and cell proliferation in rodent kidney transplant model.
      Title: APRIL/BLyS deficient rats prevent donor specific antibody (DSA) production and cell proliferation in rodent kidney transplant model.
    2. APRIL may act as an important mediator for facilitating the function of fibroblast-like synoviocyte.
      Title: APRIL promotes proliferation, secretion and invasion of fibroblast-like synoviocyte from rats with adjuvant induced arthritis.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    Homology

    Clone Names

    • MGC95053

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables cytokine activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables receptor ligand activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables tumor necrosis factor receptor binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    acts_upstream_of germinal center formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within immunoglobulin mediated immune response ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of germinal center formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of isotype switching to IgA isotypes IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within positive regulation of isotype switching to IgA isotypes ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of immune response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in signal transduction IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in external side of plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    tumor necrosis factor ligand superfamily member 13
    Names
    tumor necrosis factor (ligand) superfamily, member 13
    tumor necrosis factor ligand 7b
    tumor necrosis factor superfamily member 13

    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_001009623.2 → NP_001009623.1  tumor necrosis factor ligand superfamily member 13

      See identical proteins and their annotated locations for NP_001009623.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A0A8J8XC20, A6HFT3, E9PSM9, Q5PQL1
      Related
      ENSRNOP00000073136.2, ENSRNOT00000090762.2
      Conserved Domains (1) summary
      cd00184
      Location:108 → 238
      TNF; Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal ...

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086028.1 Reference GRCr8

      Range
      54898805..54901815 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063268640.1 → XP_063124710.1  tumor necrosis factor ligand superfamily member 13 isoform X8

    2. XM_039085456.2 → XP_038941384.1  tumor necrosis factor ligand superfamily member 13 isoform X4

      UniProtKB/TrEMBL
      A0A0G2K4Q8
      Conserved Domains (1) summary
      cd00184
      Location:98 → 222
      TNF; Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal ...

    3. XM_063268638.1 → XP_063124708.1  tumor necrosis factor ligand superfamily member 13 isoform X3

    4. XM_008767802.4 → XP_008766024.1  tumor necrosis factor ligand superfamily member 13 isoform X7

      UniProtKB/TrEMBL
      A0A0G2K4Q8
      Conserved Domains (1) summary
      cd00184
      Location:109 → 223
      TNF; Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal ...

    5. XM_039085458.2 → XP_038941386.1  tumor necrosis factor ligand superfamily member 13 isoform X6

      UniProtKB/TrEMBL
      A0A8J8XC20, A6HFT3
      Conserved Domains (1) summary
      cl00147
      Location:108 → 207
      TNF; Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal ...

    6. XM_039085452.2 → XP_038941380.1  tumor necrosis factor ligand superfamily member 13 isoform X2

      UniProtKB/TrEMBL
      A0A8J8XC20, A6HFT3
      Conserved Domains (1) summary
      cd00184
      Location:108 → 238
      TNF; Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal ...

    7. XM_063268639.1 → XP_063124709.1  tumor necrosis factor ligand superfamily member 13 isoform X5

    8. XM_008767796.4 → XP_008766018.1  tumor necrosis factor ligand superfamily member 13 isoform X1

      See identical proteins and their annotated locations for XP_008766018.1

      UniProtKB/TrEMBL
      A0A8J8XC20, A6HFT3
      Conserved Domains (1) summary
      cd00184
      Location:108 → 239
      TNF; Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal ...
    Nucleotide Protein Strain
    Heading Accession and Version

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