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Aliases & Descriptions for LTB
(According to
1 HGNC ,
2 Entrez Gene ,
3 UniProtKB/Swiss-Prot ,
4 UniProtKB/TrEMBL , 5 OMIM , 6 GeneLoc
, and/or 7 Ensembl ,
8 miRBase )About This Section
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Aliases LT-beta 3 OTTHUMP00000029185 2 OTTHUMP00000038214 2 TNF-C 3 TNFC 2 , 3 , 5 TNFSF3 1 , 2 , 3 lymphotoxin-beta 2 p33 1 , 2
Descriptions Tumor necrosis factor C 2 , 3 Tumor necrosis factor ligand superfamily member 3 3 lymphotoxin beta (TNF superfamily, member 3) 2
Search outside databases for aliases for LTB genePrevious GC identifers: GC06M031611 GC06M031602 GC06M031319 GC06M031652
Summaries for LTB (According to Entrez Gene ,
Wikipedia's
Gene Wiki ,
UniProtKB/Swiss-Prot ,
and/or
UniProtKB/TrEMBL )
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EntrezGene summary for LTB : Lymphotoxin beta is a type II membrane protein of the TNF family. It anchors lymphotoxin-alpha tothe cell surface through heterotrimer formation. The predominant form on the lymphocyte surface isthe lymphotoxin-alpha 1/beta 2 complex (e.g. 1 molecule alpha/2 molecules beta) and this complexis the primary ligand for the lymphotoxin-beta receptor. The minor complex is lymphotoxin-alpha2/beta 1. LTB is an inducer of the inflammatory response system and involved in normal developmentof lymphoid tissue. Lymphotoxin-beta isoform b is unable to complex with lymphotoxin-alphasuggesting a function for lymphotoxin-beta which is independent of lympyhotoxin-alpha. Alternativesplicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq] UniProtKB/Swiss-Prot: TNFC_HUMAN, Q06643 Function : Cytokine that binds to LTBR/TNFRSF3. May play a specific role in immune responseregulation. Provides the membrane anchor for the attachment of the heterotrimeric complex to thecell surface. Isoform 2 is probably non-functional
Gene Wiki entry for LTB
Genomic Location for LTB
(According to
GeneLoc and/or
HGNC , and/or
Entrez Gene (NCBI build 36) ,
and/or miRBase ,
Genomic Views according to
UCSC and
Ensembl ,
Transcription factor binding sites according to
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Genomic View : UCSC Golden Path with GeneCards custom track Transcription factor binding sites upstream to the LTB gene Entrez Gene cytogenetic band: 6p21.3 Ensembl cytogenetic band: 6p21.33 HGNC cytogenetic band: 6p21.3 LTB Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different) GeneLoc gene densities for chromosome 6 GeneLoc Exon Structure
GeneLoc location for GC06M031656:
(about GC identifiers )
Start:
31,656,314 bp from pter
End:
31,658,181 bp from pter
Size:
1,868 bases
Orientation:
minus strand
2 alternative locations : Chr 6-,c6_QBL 31,681,431-31,683,298 Chr 6-,c6_COX 31,683,001-31,684,868
RefSeq DNA sequence: NC_000006.10 NT_007592.14 NT_113891.1 NT_113894.1 Proteins for LTB
(According to
1 UniProtKB ,
and/or Ensembl ,
Phosphorylation sites according to 2 Phosphosite ,
RefSeq according to NCBI ,
PDB rendering according to OCA and/or Proteopedia ,
Recombinant Proteins
from Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Enzo Life Sciences ,
Abnova ,
OriGene and/or,
Abcam ,
Biochemical Assays by
Invitrogen ,
Millipore ,
R&D Systems ,
Cell Signaling Technology , and/or
Enzo Life Sciences ,
Ontologies according to Gene
Ontology Consortium 01 Apr 2009 and
Entrez Gene ,
Antibodies by Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Cell Signaling Technology ,
Abcam ,
Abnova , and/or
Novus Biologicals )
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UniProtKB/Swiss-Prot: TNFC_HUMAN, Q06643 (See
protein sequence )Recommended Name: Lymphotoxin-beta Size : 244 amino acids; 25390 Da
Subunit : Heterotrimer of either two LTB and one LTA subunits or (less prevalent) one LTB and twoLTA subunits
Subcellular location : Membrane; Single-pass type II membrane protein (Potential)
Secondary accessions : P78370 Q99761Alternative splicing : 2 isoforms : Q06643-1 Q06643-2
REFSEQ proteins (2 alternative transcripts):
NP_002332.1 NP_033666.1 ENSEMBL proteins: ENSP00000365283 ENSP00000365285 Human Recombinant Proteins Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 4 Gene Ontology (GO) cellular component terms (links to tree view) :
About this table Antibodies for LTB: Assays for LTB:
Protein
Domains/ Families for LTB(According to InterPro , ProtoNet ,
UniProtKB , and/or BLOCKS ,
Sets of similar genes according to GeneDecks )
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Graphical View of Domain Structure for InterPro Entry Q06643 ProtoNet protein and cluster: Q06643
3 Blocks protein families : IPB002961 Tumour necrosis factor c (lymphotoxin-beta) signature IPB006052 Tumor Necrosis Factor IPB006053 Tumour necrosis factor family signature UniProtKB/Swiss-Prot: TNFC_HUMAN, Q06643 Similarity : Belongs to the tumor necrosis factor family
Gene Function for LTB
(According to MGI Jun 06 2009, UniProtKB ,
IUBMB ,and/or Genatlas ,
shRNA from
OriGene ,
Sigma-Aldrich , RNAi from
Sigma-Aldrich ,
RNAi Products ,
Clones , and
Q-PCR Products
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Millipore ,
OriGene , and/or
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siRNAs from
Applied Biosystems ,
SYBR primers from OriGene ,
Cell-based Assays from Millipore ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2 ): NM_009588 Applied Biosystems Silencer ® siRNAs for LTB Sigma-Aldrich siRNA and siRNA Panels for LTB Sigma-Aldrich shRNA Panels and shRNA for LTB Explore Sigma-Aldrich super-pooled esiRNAs                OriGene GFP tagged cDNA clones in CMV expression vector (see all 2 ): NM_002341                                  Myc/DDK tagged cDNA clones in CMV expression vector (see all 2 ): NM_002341                                  untagged cDNA clones in CMV expression vector (see all 3 ): NM_002341  Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_002341 UniProtKB/Swiss-Prot: TNFC_HUMAN, Q06643 Function : Cytokine that binds to LTBR/TNFRSF3. May play a specific role in immune responseregulation. Provides the membrane anchor for the attachment of the heterotrimeric complex to thecell surface. Isoform 2 is probably non-functional
Genatlas biochemistry entry for LTB :lymphotoxin beta,expressed in macrophages,,tumors necrosis factor (ligand) superfamily,member 3
6 MGI mutant phenotypes (inferred from 7 alleles ) (MGI details for Ltb) :2 Gene Ontology (GO) molecular function terms (links to tree view) :
GO ID Qualified GO term Evidence PubMed IDs GO:0005125 cytokine activity
IEA -- GO:0005164 tumor necrosis factor receptor binding
IEA --
About this table
Pathways & Interactions for LTB
(Pathways according to Invitrogen
(maps by GeneGo ),
Millipore ,
Cell Signaling Technology ,
Sigma-Aldrich ,
KEGG
and/or UniProtKB ,
Sets of similar genes according to GeneDecks ,
Proteins Network according to
SABiosciences ,
Interactions according to 1 UniProtKB ,
2 MINT , and/or
3 STRING ,
with links to IntAct and
Ensembl ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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2 Sigma-Aldrich "Your Favorite Gene" Pathways for LTB (Your Favorite Gene powered by Ingenuity) Gene Network CentralTM Interacting Genes and Proteins Network for LTB 5 Interacting proteins for LTB (ENSP00000365285 3 ) via UniProtKB, MINT, and/or STRING About this table 5/20 Gene Ontology (GO) biological process terms (links to tree view) (see all 20
):
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Drugs & Compounds for LTB (Chemical Compounds according to UniProtKB , Enzo Life Sciences ,
Sigma-Aldrich , Tocris Bioscience , and/or
Novoseek and Drugs according to
Enzo Life Sciences and/or
PharmGKB )
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Browse Tocris compounds for LTB 1 Novoseek chemical compound relationship for LTB gene
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Transcripts for LTB(GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 219 Homo sapiens; Jun 2 2009) or GenBank , RefSeq according to Entrez Gene ,
DOTS (version 10), and/or
AceView ,
non coding RNAs according to
RNAdb ,
ESTs according to GeneTide ,
exon structure from GeneLoc ,
alternative splicing isoforms according to ASD and/or
ECgene ,
RNAi Products from Invitrogen ,
Millipore , and/or
Abnova ,
siRNAs from Applied Biosystems ,
Sigma-Aldrich ,
shRNA from
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OriGene ,
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               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2 ): NM_009588 Sigma-Aldrich siRNA and siRNA Panels for LTB Sigma-Aldrich shRNA Panels and shRNA for LTB Explore Sigma-Aldrich super-pooled esiRNAs
Applied Biosystems Silencer ® siRNAs: NM_002341 NM_009588
REFSEQ mRNAs for LTB gene (2 alternative transcripts): NM_002341.1 NM_009588.1
Applied Biosystems TaqMan ® Gene Expression Assays: NM_002341 NM_009588
               OriGene GFP tagged cDNA clones in CMV expression vector (see all 2 ): NM_002341                                  Myc/DDK tagged cDNA clones in CMV expression vector (see all 2 ): NM_002341                                  untagged cDNA clones in CMV expression vector (see all 3 ): NM_002341  
Additional cDNA sequence: AK095821.1 AK312210.1 BC055090.1 BC069330.1 BC093783.1 L11015.1 U79029.1 U89922.1
7 DOTS entries : DT.210387 DT.92422644 DT.99936177 DT.100743069 DT.95215874 DT.446271 DT.95281755
13 AceView cDNA sequences :BC069330 BX095063 NM_002341 NM_009588 U79029 L11015 U89922 AK095821 BC055090 AW978651 BC018898 AA847198 AA836521
highest scoring ESTs for LTB :BC069330 L11015 U79029 U89922 AA836521 AA847198 AW978651 BC055090 BC093783 BF238152
Unigene Cluster for LTB: Lymphotoxin beta (TNF superfamily, member 3) Hs.376208 [show with all ESTs ] Unigene Representative Sequence: AK095821 GeneLoc Exon Structure 2 Ensembl transcripts including schematic representations : ENST00000376115
ENST00000376117
Expression for LTB
(Experimental results according to
1 GeneNote
and GNF BioGPS ,
probe sets-to-genes annotations according to
2 GeneAnnot ,
3 GeneTide ,
Sets of similar genes according to GeneDecks ,
Electronic Northern calculations according to data from
UniGene (Build 219 Homo sapiens),
SAGE tags according to
CGAP ,
plus additional links to
SOURCE , and/or
GNF
BioGPS , and/or
EXPOLDB , and/or
UniProtKB ,
Expression Assays from
Applied Biosystems
)
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LTB expression in normal and diseased human tissues Applied Biosystems TaqMan ® Gene Expression Assays for LTB 1 / 2 / 3
3 probe-sets matching LTB gene Data from
(Publications) and GNF BioGPS About these images About these images CGAP SAGE TAG: GCAGTGGGAASOURCE GeneReport for Unigene cluster: Hs.376208 Expression variation in blood from EXPOLDB for LTB
UniProtKB/Swiss-Prot: TNFC_HUMAN, Q06643 Tissue specificity : Spleen and thymus
Orthologs for LTB
(Orthologs according to
1,2 HomoloGene (2 older version, for species not in 1 newer version),
3 euGenes ,
4 SGD
and/or
5 MGI Jun 06 2009,
with possible further links to
Flybase
and/or
WormBase ,
Gene Trees according to Ensembl )
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Orthologs for LTB gene from 5 species
About this table Species with no ortholog for LTB ENSEMBL Gene Tree for LTB Paralogs for LTB (Paralogs according to 1 HomoloGene and 2 Ensembl , Pseudogenes according to 3 Pseudogene.org )About This Section
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SNPs/Variants for LTB (According to the
1 NCBI SNP Database ,
2 Ensembl ,
3 PupaSUITE , and
UniProtKB ,
Linkage Disequilibrium by HapMap ,
Genotyping Reagents from
Applied Biosystems )
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HapMap Linkage Disequilibrium images for LTB (up to first 250kb)
Disorders & Mutations for LTB
(in which this Gene is Involved, According to
OMIM, UniProtKB ,
Novoseek , PharmGKB ,
Genatlas , GeneTests ,
Blood group antigen gene mutations by BGMUT ,
HGMD, GAD ,
HuGE Navigator ,
BCGD ,
and/or TGDB .)
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OMIM: 600978 10 Novoseek disease relationships for LTB gene
About this table Genetic Association Database: LTB Human Genome Epidemiology Navigator: LTB (6 documents)
Medical News for LTB (Possibly Related Articles in
Doctor's Guide )
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Publications for LTB (in
PubMed .
Associations of this gene to articles via
1 Novoseek ,
2 HGNC ,
3 Entrez Gene ,
4 UniProtKB/Swiss-Prot ,
5 UniProtKB/TrEMBL ,
6 GAD , and/or
7 PharmGKB )
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10/87 PubMed articles for LTB gene (see all 87
): Lymphotoxin beta, a novel member of the TNF family that forms a heteromeric complex with lymphotoxin on the cell surface. (PubMed id 7916655) 2, 3, 4 Browning J.L.... Ware C.F. (1993) Identification of two lymphotoxin beta isoforms expressed in human lymphoid cell lines and non-Hodgkin's lymphomas. (PubMed id 9299492) 1, 3, 4 Warzocha K....Salles G. (1997) Haplotype analysis of a 100 kb region spanning TNF-LTA identifies a polymorphism in the LTA promoter region that is associated with atopic asthma susceptibility in Japan. (PubMed id 15969671) 1, 3, 6 Migita O....Arinami T. (2005) Lymphotoxin and an associated 33-kDa glycoprotein are expressed on the surface of an activated human T cell hybridoma. (PubMed id 1714477) 1, 2, 3 Browning J.L....Ware C.F. (1991) Association of the major histocompatibility complex with response to infliximab therapy in rheumatoid arthritis patients. (PubMed id 15077289) 3, 6 Martinez A....Fernandez-Gutierrez B. (2004) The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334) 3, 4 Gerhard D.S....Malek J. (2004) Analysis of the gene-dense major histocompatibility complex class III region and its comparison to mouse. (PubMed id 14656967) 3, 4 Xie T.... Hood L. (2003) A new member of the Ig superfamily and a V-ATPase G subunit are among the predicted products of novel genes close to the TNF locus in the human MHC. (PubMed id 10202016) 3, 4 Neville M.J. and Campbell R.D. (1999) High levels of Lymphotoxin-Beta (LT-Beta) gene expression in rheumatoid arthritis synovium: clinical and cytokine correlations. (PubMed id 18379788) 1, 3 O'Rourke K.P....O'Gara F. (2008) Lymphotoxin beta-mediated stimulation of synoviocytes in rheumatoid arthritis. (PubMed id 15248211) 1, 3 Braun A....Weyand C.M. (2004)
Search for LTB
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Genome Databases showing LTB
(According to
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euGenes ,
Ensembl ,
miRBase ,
ECgene ,
and/or
H-InvDB )
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Other Databases showing LTB
(According to HUGE )
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Specialized Databases showing LTB (According to ATLAS , HORDE , IMGT , MTDB, LEIDEN , UniProtKB/Swiss-Prot , and/or UniProtKB/TrEMBL ,Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot )About This Section
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Name Description
ATLAS Chromosomes in Cancer entry for LTB Genetics and Cytogenetics in Oncology and Haematology NIEHS-SNPs http://egp.gs.washington.edu/data/ltb/ SeattleSNPs http://pga.gs.washington.edu/data/ltb/
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-- Services for LTB (Reagents available from Applied Biosystems , Antibodies and assays by Cell
Signaling Technology , Abcam , Novus Biologicals ,Sigma-Aldrich , R&D Systems , Millipore , Abnova , and/or Invitrogen , Clones available from OriGene ,and/or Invitrogen , Drugs and/or compounds by Sigma-Aldrich , Enzo Life Sciences , and/or Tocris Bioscience )About This Section
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Products for LTB:
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