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    Ltbr lymphotoxin beta receptor [ Rattus norvegicus (Norway rat) ]

    Gene ID: 297604, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ltbrprovided by RGD
    Official Full Name
    lymphotoxin beta receptorprovided by RGD
    Primary source
    RGD:1309448
    See related
    EnsemblRapid:ENSRNOG00000019264 AllianceGenome:RGD:1309448
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable identical protein binding activity and ubiquitin protein ligase binding activity. Predicted to be involved in cellular response to mechanical stimulus and positive regulation of signal transduction. Predicted to act upstream of or within myeloid dendritic cell differentiation. Predicted to be located in Golgi apparatus. Orthologous to human LTBR (lymphotoxin beta receptor). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Liver (RPKM 279.1), Lung (RPKM 262.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ltbr in Genome Data Viewer
    Location:
    4q42
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (159795115..159801571, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (158108884..158115339, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (157822838..157829291, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA70 Neighboring gene uncharacterized LOC102555545 Neighboring gene tubulin, alpha 3A Neighboring gene sodium channel epithelial 1 subunit alpha Neighboring gene TNF receptor superfamily member 1A

    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. The MYND domain-containing protein BRAM1 inhibits lymphotoxin beta receptor-mediated signaling through affecting receptor oligomerization. Liu HP, et al. Cell Signal, 2011 Jan. PMID 20732415
    2. Notch2-dependent classical dendritic cells orchestrate intestinal immunity to attaching-and-effacing bacterial pathogens. Satpathy AT, et al. Nat Immunol, 2013 Sep. PMID 23913046, Free PMC Article
    3. A diverse family of proteins containing tumor necrosis factor receptor-associated factor domains. Zapata JM, et al. J Biol Chem, 2001 Jun 29. PMID 11279055
    4. Expression of the Bcl-2 protein BAD promotes prostate cancer growth. Smith AJ, et al. PLoS One, 2009 Jul 13. PMID 19593445, Free PMC Article
    5. Large-scale identification and characterization of human genes that activate NF-kappaB and MAPK signaling pathways. Matsuda A, et al. Oncogene, 2003 May 22. PMID 12761501

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC94657

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin protein ligase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in cellular response to mechanical stimulus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in hematopoietic or lymphoid organ development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in immune response IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within myeloid dendritic cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of JNK cascade ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of canonical NF-kappaB signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of canonical NF-kappaB signal transduction ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of extrinsic apoptotic signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    tumor necrosis factor receptor superfamily member 3
    Names
    lymphotoxin B receptor
    lymphotoxin beta receptor (TNFR superfamily, member 3)

    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_001008315.1 → NP_001008316.1  tumor necrosis factor receptor superfamily member 3 precursor

      See identical proteins and their annotated locations for NP_001008316.1

      Status: PROVISIONAL

      Source sequence(s)
      BC085880
      UniProtKB/TrEMBL
      F7FAR8, Q5U2S8
      Related
      ENSRNOP00000026184.5, ENSRNOT00000026184.6
      Conserved Domains (3) summary
      cd00185
      Location:172 → 212
      TNFRSF; CRD2 [structural motif]
      cd10578
      Location:11 → 170
      TNFRSF3; Tumor necrosis factor receptor superfamily member 3 (TNFRSF3), also known as lymphotoxin beta receptor (LTBR)
      cl22855
      Location:148 → 212
      TNFRSF; Tumor necrosis factor receptor superfamily (TNFRSF)

    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_086022.1 Reference GRCr8

      Range
      159795115..159801571 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006237351.2 → XP_006237413.1  tumor necrosis factor receptor superfamily member 3 isoform X1

      UniProtKB/TrEMBL
      F7FAR8
      Conserved Domains (3) summary
      cd00185
      Location:172 → 212
      TNFRSF; CRD2 [structural motif]
      cd10578
      Location:11 → 170
      TNFRSF3; Tumor necrosis factor receptor superfamily member 3 (TNFRSF3), also known as lymphotoxin beta receptor (LTBR)
      cl22855
      Location:148 → 212
      TNFRSF; Tumor necrosis factor receptor superfamily (TNFRSF)
    Nucleotide Protein Strain
    Heading Accession and Version

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