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TRD Gene

protein-coding   GIFtS: 17
GCID: GC14P023691

T Cell Receptor Delta Locus


(Previous symbols: TCRD, TRD@)
  See related diseases
at  

(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
T Cell Receptor Delta Locus1 2     T-Cell Antigen Receptor, Delta Polypeptide2
TCRD1 2     T-Cell Receptor, Delta (V,D,J,C)2
TRD@1 2     TRDJ@5
TCRDV12     

External Ids:    HGNC: 122521   Entrez Gene: 69642   OMIM: 6154615   

Export aliases for TRD gene to outside databases

Previous GC identifers: GC00U990375 GC14P022893


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for TRD Gene:
TRD (T cell receptor delta locus) is a protein-coding gene. Diseases associated with TRD include subcutaneous panniculitis-like t-cell lymphoma, and precursor t-cell acute lymphoblastic leukemia.

Gene Wiki entry for TRD (TRD@) 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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Regulatory elements:
   Search for regulatory transcription factor binding sites for TRD
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TRD


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

Entrez Gene cytogenetic band: 14q11.2   HGNC cytogenetic band: 14q11.2

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

GeneLoc information about chromosome 14         GeneLoc Exon Structure

GeneLoc location for GC14P023691:  view genomic region     (about GC identifiers)

Start:
22,891,537 bp from pter      End:
22,935,569 bp from pter
Size:
44,033 bases      Orientation:
plus strand
TRD has overlapping exons with:
TRAV34 TRAV31 TRAV27

(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, Cloud-Clone Corp, and/or others.)
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UniProtKB: --


(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
TRD: T cell receptors / TRD locus

  --

(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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Phenotypes:
     12 MGI mutant phenotypes (inferred from 3 alleles(MGI details for Tcrd):
 cardiovascular system  cellular  digestive/alimentary  hematopoietic system  homeostasis/metabolism 
 immune system  integument  liver/biliary system  mortality/aging  renal/urinary system 
 respiratory system  tumorigenesis 

TRD for phenotypes           About GeneDecksing

Animal Models:
     MGI mouse knock-outs for TRD: Tcrdtm1Fwa Tcrdtm1Mom

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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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  --

(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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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for TRD
Interactions:

    Search GeneGlobe Interaction Network for TRD

(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 TRD

2 Novoseek inferred chemical compound relationships for TRD gene    About this table
Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
glucose 6-phosphate 13.4 1 11724354 (1)
polyacrylamide 11.3 1 16404354 (1)



TRD 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,
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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miRNA
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Inhib. RNA
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GeneLoc Exon Structure


(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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See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --


TRD expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 selected tissues (see all 2) fully expand
 
 Thymus (Hematopoietic System)
         Double Positive Thymocytes Thymus
 
 Blood (Cardiovascular System)
         Double Positive Thymocytes Thymus
TRD Protein expression data from MOPED1, PaxDb2 and MaxQB3 --
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In Situ
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(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 TRD gene from 1 species (see representative species )    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Tcrd5 T cell receptor delta chain   --   14 -

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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  --

(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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Locus Specific Mutation Databases (LSDB): TRD

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

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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OMIM gene information: 615461    OMIM disorders: --

Selected diseases for TRD (see all 38):    
About MalaCards
subcutaneous panniculitis-like t-cell lymphoma    precursor t-cell acute lymphoblastic leukemia    chronic active epstein-barr virus infection    acute undifferentiated leukemia
takayasu's arteritis    panniculitis    precursor b-cell acute lymphoblastic leukemia    hypereosinophilic syndrome
west nile virus    lymphoblastic lymphoma    synovitis    plasmodium falciparum malaria
acute graft versus host disease    peripheral t-cell lymphoma    arthropathy    thymoma
cutaneous t cell lymphoma    neutropenia    lymphoblastic leukemia    acute leukemia


TRD for disorders           About GeneDecksing

Selected Novoseek inferred disease relationships for TRD gene (see all 11)    About this table

Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
minimal residual disease 84.5 10 12774926 (1), 12970784 (1), 16247752 (1), 10025893 (1) (see all 8)
t-all 79.7 11 10025894 (2), 19176062 (1), 16404354 (1), 1402666 (1) (see all 8)
lymphoblastic leukemia acute 73.4 10 12774926 (2), 10025893 (1), 1328776 (1), 7606000 (1) (see all 7)
leukemia 56.8 10 8391615 (1), 2011404 (1), 1328863 (1), 8756082 (1) (see all 9)
acute leukemia 45.4 1 8756082 (1)
lymphoblastic leukemia acute childhood 42.7 3 16404354 (1), 12860036 (1), 11876997 (1)
lymphoma 31.5 3 8756082 (2), 9209365 (1)
synovitis 20.7 1 1825059 (1)
chromosomal aberrations 8.44 1 8827877 (1)
rheumatoid arthritis 3.87 3 9098458 (2), 1396965 (1)


Export disorders for TRD 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 TRD gene, integrated from 10 sources (see all 147):
(articles sorted by number of sources associating them with TRD)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Use of a variable alpha region to create a functional T-cell receptor delta chain. (PubMed id 2456576)1, 3 Guglielmi P....Bensussan A. (Proc. Natl. Acad. Sci. U.S.A. 1988)
  2. A new T-cell receptor gene located within the alpha locus and expressed early in T-cell differentiation. (PubMed id 2439914)1, 3 Chien Y.H....Davis M.M. (Nature 1987)
  3. Lymphoid differentiation pathways can be traced by TCR delta rearrangements. (PubMed id 16081821)1, 9 FronkovA! E....HrusA!k O. (J. Immunol. 2005)
  4. Vdelta2-Jalpha rearrangements are frequent in precursor-B-acute lymphoblastic leukemia but rare in normal lymphoid cells. (PubMed id 14656882)1, 9 Szczepanski T....van Dongen J.J. (Blood 2004)
  5. Human CD3I^, but not CD3I', haploinsufficiency differentially impairs I^I' versus I+I^ surface TCR expression. (PubMed id 23336327)1 MuA+oz-Ruiz M....Regueiro J.R. (BMC Immunol. 2013)
  6. A second combinatorial immune receptor in monocytes/macrophages is based on the TCRI^I'. (PubMed id 23312956)1 Fuchs T....Kaminski W.E. (Immunobiology 2013)
  7. CD1d-lipid antigen recognition by the ?? TCR. (PubMed id 24076636)1 Uldrich A.P....Godfrey D.I. (Nat. Immunol. 2013)
  8. An abnormal phenotype of lung VI^9VI'2 T cells impairs their responsiveness in tuberculosis patients. (PubMed id 23770719)1 El Daker S....Martino A. (Cell. Immunol. 2013)
  9. Dietary gluten triggers concomitant activation of CD4+ and CD8+ I+I^ T cells and I^I' T cells in celiac disease. (PubMed id 23878218)1 Han A....Davis M.M. (Proc. Natl. Acad. Sci. U.S.A. 2013)
  10. Antibody-dependent anti-cytomegalovirus activity of human I^I' T cells expressing CD16 (FcI^RIIIa). (PubMed id 22180442)1 Couzi L....DAcchanet-Merville J. (Blood 2012)

(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: 6964 HGNC: 12252 euGenes: HUgn6964 ECgene: TRD H-InvDB: TRD

(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 TRD Pharmacogenomics, SNPs, Pathways

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

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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