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LTBR Gene

protein-coding   GIFtS: 63
GCID: GC12P006484

Lymphotoxin Beta Receptor (TNFR Superfamily, Member 3)


(Previous symbol: D12S370)
Microbiology & Infectious Diseases Congress
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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Lymphotoxin Beta Receptor (TNFR Superfamily, Member 3)1 2     LT-BETA-R2
D12S3701 2 3     TNF-R-III2
TNFCR2 3 5     TNFR-RP2
Tumor Necrosis Factor C Receptor2 3     TNFR2-RP2
Tumor Necrosis Factor Receptor 2-Related Protein2 3     Lymphotoxin B Receptor2
Tumor Necrosis Factor Receptor Type III2 3     Tumor Necrosis Factor Receptor Superfamily Member 32
TNFR32 3     TNF-RIII3
TNFRSF32 3     TNFR-III3
CD182     Lymphotoxin-Beta Receptor3

External Ids:    HGNC: 67181   Entrez Gene: 40552   Ensembl: ENSG000001113217   OMIM: 6009795   UniProtKB: P369413   

Export aliases for LTBR gene to outside databases

Previous GC identifers: GC12P006348 GC12P006467 GC12P006363 GC12P006347


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for LTBR Gene:
This gene encodes a member of the tumor necrosis factor receptor superfamily. The major ligands of this receptor
include lymphotoxin alpha/beta and tumor necrosis factor ligand superfamily member 14. The encoded protein plays
a role in signalling during the development of lymphoid and other organs, lipid metabolism, immune response, and
programmed cell death. Activity of this receptor has also been linked to carcinogenesis. Alternatively spliced
transcript variants encoding multiple isoforms have been observed. (provided by RefSeq, Aug 2012)

GeneCards Summary for LTBR Gene:
LTBR (lymphotoxin beta receptor (TNFR superfamily, member 3)) is a protein-coding gene. Diseases associated with LTBR include chronic granulomatous disease, and peritonitis. GO annotations related to this gene include identical protein binding and ubiquitin protein ligase binding. An important paralog of this gene is TNFRSF21.

UniProtKB/Swiss-Prot: TNR3_HUMAN, P36941
Function: Receptor for the heterotrimeric lymphotoxin containing LTA and LTB, and for TNFS14/LIGHT. Promotes
apoptosis via TRAF3 and TRAF5. May play a role in the development of lymphoid organs

Gene Wiki entry for LTBR (Lymphotoxin beta receptor) Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000012.12  NT_009759.17  NC_018923.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the LTBR gene promoter:
         AhR   GR   AP-1   ATF-2   GR-beta   STAT3   Chx10   GR-alpha   c-Jun   NF-kappaB1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): LTBR promoter sequence
   Search Chromatin IP Primers for LTBR

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat LTBR


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 12p13   Ensembl cytogenetic band:  12p13.31   HGNC cytogenetic band: 12p13

LTBR Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
LTBR gene location

GeneLoc information about chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12P006484:  view genomic region     (about GC identifiers)

Start:
6,484,211 bp from pter      End:
6,500,734 bp from pter
Size:
16,524 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: TNR3_HUMAN, P36941 (See protein sequence)
Recommended Name: Tumor necrosis factor receptor superfamily member 3 precursor  
Size: 435 amino acids; 46709 Da
Subunit: Self-associates. Associates with TRAF3, TRAF4 and TRAF5. Interacts with HCV core protein
2 PDB 3D structures from and Proteopedia for LTBR:
1RF3 (3D)        4MXW (3D)    
Secondary accessions: B7Z1D2 D3DUR2 F5GXE7
Alternative splicing: 2 isoforms:  P36941-1   P36941-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for LTBR: NX_P36941

Explore proteomics data for LTBR at MOPED

Post-translational modifications: 

  • Glycosylation2 at Asn40, Asn177
  • Modification sites at PhosphoSitePlus

  • See LTBR Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_001257916.1  NP_002333.1  

    ENSEMBL proteins: 
     ENSP00000440875   ENSP00000228918   ENSP00000437647   ENSP00000438955   ENSP00000437954  
     ENSP00000438605  

    LTBR Human Recombinant Protein Products:

    Browse Purified and Recombinant Proteins at EMD Millipore
    R&D Systems Recombinant & Natural Proteins for LTBR (Lymphotoxin beta R/TNFRSF3)
    Enzo Life Sciences proteins for LTBR
    OriGene Purified Protein for LTBR
    OriGene Protein Over-expression Lysate for LTBR
    OriGene Custom MassSpec
    OriGene Custom Protein Services for LTBR
    GenScript Custom Purified and Recombinant Proteins Services for LTBR
    Novus Biologicals LTBR Protein
    Novus Biologicals LTBR Lysates
    Sino Biological Recombinant Protein for LTBR
    Sino Biological Cell Lysate for LTBR
    Browse ProSpec Recombinant Proteins
    Browse Proteins at Cloud-Clone Corp.

    LTBR Antibody Products:

    Browse EMD Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    R&D Systems Antibodies for LTBR (Lymphotoxin beta R/TNFRSF3)
    OriGene Antibodies for LTBR
    OriGene Custom Antibody Services for LTBR
    Novus Biologicals LTBR Antibodies
    Abcam antibodies for LTBR
    Browse Antibodies at Cloud-Clone Corp.
    ThermoFisher Antibodies for LTBR
    LSBio Antibodies in human, mouse, rat for LTBR

    LTBR Assay Products:

    Browse Kits and Assays available from EMD Millipore
    OriGene Custom Assay Services for LTBR
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for LTBR
    Browse Enzo Life Sciences for kits & assays
    Browse ELISAs at Cloud-Clone Corp.
    Browse CLIAs at Cloud-Clone Corp.


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    TNFRSF: Tumor necrosis factor receptor superfamily

    IUPHAR Guide to PHARMACOLOGY protein family classification: lymphotoxin beta receptor
    Tumour necrosis factor (TNF) receptor family

    2 InterPro protein domains:
     IPR001368 TNFR/NGFR_Cys_rich_reg
     IPR017349 TNFR_3_LTBR

    Graphical View of Domain Structure for InterPro Entry P36941

    ProtoNet protein and cluster: P36941

    1 Blocks protein domain: IPB001368 TNFR/CD27/30/40/95 cysteine-rich region

    UniProtKB/Swiss-Prot: TNR3_HUMAN, P36941
    Similarity: Contains 4 TNFR-Cys repeats


    LTBR for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: TNR3_HUMAN, P36941
    Function: Receptor for the heterotrimeric lymphotoxin containing LTA and LTB, and for TNFS14/LIGHT. Promotes
    apoptosis via TRAF3 and TRAF5. May play a role in the development of lymphoid organs

         Genatlas biochemistry entry for LTBR:
    lymphotoxin B receptor,(tumor necrosis factor receptor TNFR superfamily,member 3),expressed at the surface of most
    cell types,including cells of epithelial and myeloid lineages but not on T and B cells,involved in lymphoid organ
    development and apoptosis through interaction with TRAF3

         Gene Ontology (GO): 3 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI12393901
    GO:0031625ubiquitin protein ligase binding IPI11279055
    GO:0042802identical protein binding IPI--
         
    LTBR for ontologies           About GeneDecksing


    Phenotypes:
         7 MGI mutant phenotypes (inferred from 4 alleles(MGI details for Ltbr):
     digestive/alimentary  growth/size/body  hematopoietic system  homeostasis/metabolism  immune system 
     mortality/aging  normal 

    LTBR for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-out Ltbrtm1Kpf for LTBR

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for LTBR
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for LTBR

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for LTBR
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for LTBR

    miRNA
    Products:
        
    miRTarBase miRNAs that target LTBR:
    hsa-mir-98-5p (MIRT027696)

    Block miRNA regulation of human, mouse, rat LTBR using miScript Target Protectors
    6 qRT-PCR Assays for microRNAs that regulate LTBR:
    hsa-miR-409-5p hsa-miR-146b-3p hsa-miR-29a hsa-miR-29c hsa-miR-455-3p hsa-miR-29b
    SwitchGear 3'UTR luciferase reporter plasmidLTBR 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for LTBR
    Predesigned siRNA for gene silencing in human, mouse, rat LTBR

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for LTBR

    Clone
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    OriGene clones in human, mouse for LTBR (see all 7)
    OriGene ORF clones in mouse, rat for LTBR
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: LTBR (NM_002342)
    Sino Biological Human cDNA Clone for LTBR
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for LTBR
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LTBR

    Cell Line
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    GenScript Custom overexpressing Cell Line Services for LTBR
    Browse ESI BIO Cell Lines and PureStem Progenitors for LTBR 
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LTBR


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    TNR3_HUMAN, P36941: Membrane; Single-pass type I membrane protein
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    plasma membrane3
    extracellular2
    cytosol1
    golgi apparatus1
    nucleus1
    peroxisome1

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016021integral component of membrane IEA--

    LTBR for ontologies           About GeneDecksing


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for LTBR About   (see all 13)                                                                                              See pathways by source

    SuperPathContained pathways About
    1LT-BetaR Pathway
    LT-BetaR Pathway0.46
    Apoptosis and survival Lymphotoxin beta receptor signaling0.46
    2NF-KappaB Family Pathway
    NF-KappaB Family Pathway0.72
    3TNF Signaling
    TNF Superfamily - Human Ligand-Receptor Interactions and their Associated Functions0.49
    4PEDF Induced Signaling
    Cytokine-cytokine receptor interaction0.43
    5TRAF Pathway
    TNF Superfamily Pathway0.42

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 R&D Systems Pathway for LTBR
        TNF Superfamily - Human Ligand-Receptor Interactions & their Associated Functions

    3 Downloadable PowerPoint Slides of GeneGlobe Pathway Central Maps for LTBR
        LT-BetaR Pathway
    TNF Superfamily Pathway
    NF-KappaB Family Pathway

    3 GeneGo (Thomson Reuters) Pathways for LTBR
        Apoptosis and survival Apoptotic TNF-family pathways
    Transcription NF-kB signaling pathway
    Apoptosis and survival Lymphotoxin-beta receptor signaling


    1 PharmGKB Pathway for LTBR
        Busulfan Pathway, Pharmacodynamics

    Selected Kegg Pathways  (Kegg details for LTBR) (see all 6):
        Cytokine-cytokine receptor interaction
    NF-kappa B signaling pathway
    HIF-1 signaling pathway
    Intestinal immune network for IgA production
    HTLV-I infection


    LTBR for pathways           About GeneDecksing

        Pathway & Disease-focused RT2 Profiler PCR Arrays including LTBR: 
              HIV Host Response in human mouse rat
              TNF Ligands & Receptors in human mouse rat
              NFKB Signaling Pathway in human mouse rat
              Apoptosis 384HT in human mouse rat
              Apoptosis in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for LTBR

    STRING Interaction Network Preview (showing 5 interactants - click image to see 18)

    Selected Interacting proteins for LTBR (P369411, 3 ENSP000002289184) via UniProtKB, MINT, STRING, and/or I2D (see all 29)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    LTBQ066433, ENSP000004104814I2D: score=3 STRING: ENSP00000410481
    ENSG00000204487Q066433I2D: score=3 
    ENSG00000206437Q066433I2D: score=3 
    ENSG00000223448Q066433I2D: score=3 
    ENSG00000231314Q066433I2D: score=3 
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 8):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006915apoptotic process IEA--
    GO:0007165signal transduction TAS8171323
    GO:0016032viral process IEA--
    GO:0019048modulation by virus of host morphology or physiology ----
    GO:0043123positive regulation of I-kappaB kinase/NF-kappaB signaling IEP12761501

    LTBR for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for LTBR (TNR3)

    1 IUPHAR Ligand for LTBR (lymphotoxin beta receptor)    About this table
    LigandTypeActionAffinityPubmed IDs
    LIGHT
    NoneNone--

    5 Novoseek inferred chemical compound relationships for LTBR gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    glucuronoxylomannan 55.1 2 15593014 (1), 12145626 (1)
    rantes 24 1 9029113 (1)
    retinoic acid 17.4 21 12485937 (8), 16581781 (6), 18789152 (1)
    zinc 0 2 9388227 (1)
    serine 0 3 9202035 (2), 18550257 (1)



    LTBR for compounds           About GeneDecksing



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for LTBR gene (2 alternative transcripts): 
    NM_001270987.1  NM_002342.2  

    Unigene Cluster for LTBR:

    Lymphotoxin beta receptor (TNFR superfamily, member 3)
    Hs.1116  [show with all ESTs]
    Unigene Representative Sequence: AK128019
    15 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000546296 ENST00000542830 ENST00000539925 ENST00000228918(uc010sfc.1 uc001qny.1 uc001qnz.1)
    ENST00000536876 ENST00000535739 ENST00000543190 ENST00000545445 ENST00000544454
    ENST00000541102 ENST00000440421 ENST00000444814 ENST00000541005 ENST00000543542
    ENST00000441074
    Congresses - knowledge worth sharing:
    European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) 10 - 13 May 2014

    miRNA
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    Block miRNA regulation of human, mouse, rat LTBR using miScript Target Protectors
    6 qRT-PCR Assays for microRNAs that regulate LTBR:
    hsa-miR-409-5p hsa-miR-146b-3p hsa-miR-29a hsa-miR-29c hsa-miR-455-3p hsa-miR-29b
    SwitchGear 3'UTR luciferase reporter plasmidLTBR 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat LTBR
    Clone
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    OriGene clones in human, mouse for LTBR (see all 7)
    OriGene ORF clones in mouse, rat for LTBR
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: LTBR (NM_002342)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for LTBR
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LTBR
    Primer
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    OriGene qPCR primer pairs and template standards for LTBR
    OriGene qSTAR qPCR primer pairs in human, mouse for LTBR
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat LTBR
      QuantiTect SYBR Green Assays in human, mouse, rat LTBR
      QuantiFast Probe-based Assays in human, mouse, rat LTBR

    Additional mRNA sequence: 

    AK027080.1 AK095418.1 AK128019.1 AK293187.1 BC026262.1 BX648074.1 L04270.1 

    22 DOTS entries:

    DT.100044531  DT.100845908  DT.453091  DT.100782830  DT.100845903  DT.100040462  DT.100730296  DT.95289420 
    DT.100845892  DT.100845906  DT.100773870  DT.95151755  DT.100845901  DT.306234  DT.95151741  DT.100845898 
    DT.121189406  DT.121189410  DT.92433541  DT.450261  DT.75100038  DT.97819447 

    10 AceView cDNA sequences:

    AK027080 BC026262 CR626362 CR620746 AK128019 L04270 BX648074 AK095418 
    NM_002342 L04489 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for LTBR (see all 8)    About this scheme

    ExUns: 1a · 1b · 1c · 1d · 1e ^ 2 ^ 3a · 3b · 3c · 3d ^ 4 ^ 5a · 5b · 5c ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11
    SP1:                                      -                 -                                   -                           
    SP2:                                      -     -           -                                   -                           
    SP3:                                      -                 -                                                               
    SP4:                                      -                 -           -     -     -           -                           
    SP5:                                      -                                                                                 


    ECgene alternative splicing isoforms for LTBR

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    LTBR expression in normal human tissues (normalized intensities)      LTBR embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    LTBR Expression
    About this image


    LTBR expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 10) fully expand
     
     Bone (Muscoskeletal System)
             Rib
     
     Colon (Gastrointestinal Tract)
     
     Kidney (Urinary System)
     
     Thyroid (Endocrine System)
     
     Lung (Respiratory System)
    LTBR Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    LTBR Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.1116
        Pathway & Disease-focused RT2 Profiler PCR Arrays including LTBR: 
              HIV Host Response in human mouse rat
              TNF Ligands & Receptors in human mouse rat
              NFKB Signaling Pathway in human mouse rat
              Apoptosis 384HT in human mouse rat
              Apoptosis in human mouse rat

    Primer
    Products:
    OriGene qPCR primer pairs and template standards for LTBR
    OriGene qSTAR qPCR primer pairs in human, mouse for LTBR
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat LTBR
    QuantiTect SYBR Green Assays in human, mouse, rat LTBR
    QuantiFast Probe-based Assays in human, mouse, rat LTBR
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LTBR

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of human and mouse.

    Orthologs for LTBR gene from Selected species (see all 6)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ltbr1 , 5 lymphotoxin B receptor1, 5 76.28(n)1
    70.17(a)1
      6 (59.32 cM)5
    170001  NM_010736.31  NP_034866.11 
     1253065715 


    ENSEMBL Gene Tree for LTBR (if available)
    TreeFam Gene Tree for LTBR (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for LTBR gene
    TNFRSF212  TNFRSF11A2  TNFRSF6B2  TNFRSF11B2  TNFRSF142  CD402  TNFRSF1B2  

    LTBR for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for LTBR (see all 351)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 12 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs675941201,2
    C--6341605(+) ATGGA-/GCCAAAG 1 -- int10--------
    rs1446598741,2
    C--6342687(+) TGGCCA/GGGCAT 1 -- int10--------
    rs1850396501,2
    --6342735(+) CGAGGA/CGGGTG 1 -- int10--------
    rs1893729041,2
    --6342788(+) TGAAAA/CCCCGT 1 -- int10--------
    rs23644781,2
    C,H--6342981(+) AAAAAC/AAAAAA 1 -- int11Minor allele frequency- A:0.00NA 2
    rs110641541,2
    --6342993(+) AAAAAC/AAAAAA 1 -- int11Minor allele frequency- A:0.00NA 2
    rs800602011,2
    F--6343017(+) CTAGAA/GGTTTA 1 -- int11Minor allele frequency- G:0.03WA 118
    rs1137221881,2
    C,F--6343022(+) AGTTTG/ATCACT 1 -- int11Minor allele frequency- A:0.50CSA 2
    rs1503005711,2
    --6343027(+) ATCACG/TTTGAT 1 -- int10--------
    rs1810485051,2
    --6343074(+) TTTTCA/GGCTGT 1 -- int10--------

    HapMap Linkage Disequilibrium report for LTBR (6484211 - 6500734 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for LTBR:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv34325CNV Gain17911159
    dgv453e1CNV Complex17122850

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing LTBR
    DNA2.0 Custom Variant and Variant Library Synthesis for LTBR

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 600979    OMIM disorders: --

    Selected diseases for LTBR (see all 36):    About MalaCards
    chronic granulomatous disease    peritonitis    acute promyelocytic leukemia    hepatitis c virus
    hepatitis c    encephalomyelitis    childhood leukemia    inflammatory bowel disease
    meningitis    graft versus host disease    non-hodgkin lymphoma    hodgkin's lymphoma
    rhabdomyosarcoma    ankylosing spondylitis    spondylitis    meningioma
    rheumatoid arthritis    multiple myeloma    hepatitis    herpes simplex


    LTBR for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:
    The International Symposium on Pneumococci and Pneumococcal Diseases (ISPPD) 9 - 13 March 2014

    Selected Novoseek inferred disease relationships for LTBR gene (see all 18)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    latent virus infection 71.4 1 11278268 (1)
    herpes 68.2 26 12566458 (2), 15814693 (1), 10358762 (1), 15917993 (1) (see all 14)
    necrosis 67.7 62 14517219 (2), 10753918 (2), 8995654 (1), 9388227 (1) (see all 42)
    tumors 52.8 81 9739048 (3), 8642291 (3), 14517219 (2), 19701890 (2) (see all 47)
    inflammation 30 8 15067315 (2), 9029113 (1), 18292573 (1), 19111021 (1) (see all 5)
    autoimmunity 27 2 14517552 (1), 12953095 (1)
    rheumatoid arthritis 26.1 1 18412315 (1)
    herpes simplex 23.2 5 12466117 (1), 12566458 (1), 15814693 (1), 15546385 (1)
    colitis 21.2 5 15521015 (4), 12704158 (1)
    inflammatory bowel diseases 12.3 1 15521015 (1)

    Genetic Association Database (GAD): LTBR
    Human Genome Epidemiology (HuGE) Navigator: LTBR (7 documents)

    Export disorders for LTBR gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for LTBR gene, integrated from 10 sources (see all 191):
    (articles sorted by number of sources associating them with LTBR)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. A lymphotoxin-beta-specific receptor. (PubMed id 8171323)1, 2, 3, 9 Crowe P.D.... Smith C.A. (Science 1994)
    2. Construction and evaluation of a hncDNA library of human 12p transcribed sequences derived from a somatic cell hybrid. (PubMed id 8486360)1, 2, 3 Baens M.... Marynen P. (Genomics 1993)
    3. TRAF5, an activator of NF-kappaB and putative signal transducer for the lymphotoxin-beta receptor. (PubMed id 8663299)1, 2, 9 Nakano H.... Okumura K. (J. Biol. Chem. 1996)
    4. The cytoplasmic domain of the lymphotoxin-beta receptor mediates cell death in HeLa cells. (PubMed id 10207006)1, 2, 9 Wu M.-Y.... Hsieh S.-L. (J. Biol. Chem. 1999)
    5. The lymphotoxin-beta receptor is necessary and sufficient for LIGHT- mediated apoptosis of tumor cells. (PubMed id 10799510)1, 2, 9 Rooney I.A.... Ware C.F. (J. Biol. Chem. 2000)
    6. TRAF-4 expression in epithelial progenitor cells. Analysis in normal adult, fetal, and tumor tissues. (PubMed id 9626059)1, 2, 9 Krajewska M.... Reed J.C. (Am. J. Pathol. 1998)
    7. Hepatitis C virus core protein interacts with the cytoplasmic tail of lymphotoxin-beta receptor. (PubMed id 8995654)1, 2, 9 Matsumoto M....Lai M.M.C. (J. Virol. 1997)
    8. Cloning and characterization of a cDNA encoding the human homolog of tumor necrosis factor receptor-associated factor 5 (TRAF5). (PubMed id 9511754)1, 2, 9 Mizushima S.... Inoue J. (Gene 1998)
    9. Risk of meningioma and common variation in genes related to innate immunity. (PubMed id 20406964)1, 4 Rajaraman P....Inskip P.D. (amp 2010)
    10. Polymorphisms in innate immunity genes and risk of childhood leukemia. (PubMed id 20438785)1, 4 Han S....Kang D. (Hum. Immunol. 2010)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 4055 HGNC: 6718 AceView: LTBR Ensembl:ENSG00000111321 euGenes: HUgn4055
    ECgene: LTBR Kegg: 4055 H-InvDB: LTBR

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for LTBR Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for LTBR Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for LTBR gene:
    Search GeneIP for patents involving LTBR

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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