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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

TRD@ Cluster

gene cluster   GIFtS: 22
GCID: GC14P022891

T cell receptor delta locus


(Previous symbol: TCRD)
 Explore 37 diseases affiliated with
TRD@ via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for TRD@    

Aliases
for TRD@ gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
T Cell Receptor Delta Locus1 2
TCRD1 2 5
TCRDV11 2
TRD1 2
T-Cell Antigen Receptor, Delta Polypeptide2
T-Cell Receptor, Delta (V,D,J,C)2

External Ids:    HGNC: 122521   Entrez Gene: 69642   OMIM: 1868105   

Export aliases for TRD@ gene to outside databases

Previous GC identifers: GC14U990058 GC14P021963 GC14P003009


Summaries
for TRD@ gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
Gene Wiki entry for TRD@


Genomic Views
for 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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
 Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for TRD@
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for TRD@

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays 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 GC14P022891:  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 TRAV29DV5 TRAV27

Proteins
for TRD@ gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB: --

Protein Domains /
Families
for TRD@ gene

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
   --

Function
for TRD@ gene

(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
About This Section
miRNA
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Inhib. RNA
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Gene Editing
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Cell Line
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In Situ Assay
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Animal Models:
     Mouse knock-outs for TRD@: Tcrdtm1Fwa Tcrdtm1Mom
     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


Pathways & Interactions
for TRD@ gene

(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, 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 Mar 2013 via Entrez Gene).
About This Section



Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TRD@

Drugs & Compounds
for TRD@ gene

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section

TRD@ for compounds           About GeneDecksing

Browse Small Molecules at EMD Millipore
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Browse Tocris compounds for TRD@
2 Novoseek 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)

Search CenterWatch for drugs/clinical trials and news about TRD@ 

Transcripts
for TRD@ gene

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 235 Homo sapiens; Mar 10 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,
RNAi Products from EMD Millipore,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

miRNA
Products:     		Browse 3'-UTR reporter clones for miRNA target validation
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Search QIAGEN for miScript miRNA Assays for microRNAs that regulate TRD@
Browse SwitchGear 3'UTR luciferase reporter plasmids
Inhib. RNA
Products:     		Browse for Gene Knock-down Tools from EMD Millipore
Browse OriGene 29mer shRNA kits
Browse OriGene siRNA
Search QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat TRD@
Clone
Products:     		Browse OriGene untagged/tagged cDNA clones in CMV expression vector
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
GenScript Custom all cDNA clones Services for TRD@
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Primer
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  Search QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TRD@

GeneLoc Exon Structure


Expression
for TRD@ gene

(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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

TRD@ expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --

Microarray
RNAseq (Illumina Body Map)
(100×FPKM)½
SAGE (Serial Analysis of Gene Expression)
About this image    SABiosciences Custom PCR Arrays for TRD@
Primer
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Search QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TRD@
In Situ
Assay Products: 
 		Search Advanced Cell Diagnostics for RNAscope RNA in situ hybridization assays for TRD@

Orthologs
for TRD@ gene

(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)
About This Section
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
for TRD@ gene

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

Genomic Variants
for TRD@ gene

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section

Human Gene Mutation Database (HGMD): TRD@

Locus Specific Mutation Databases (LSDB): TRD@
SABiosciences Cancer Mutation PCR Assays
Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TRD@
DNA2.0 Custom Variant and Variant Library Synthesis for TRD@

Disorders / Diseases
for TRD@ gene

(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.)
About This Section
TRD@ for disorders           About GeneDecksing

OMIM gene information: 186810    OMIM disorders: --

20/37 diseases for TRD@ (see all 37):    About MalaCards
chronic active epstein-barr virus infection    subcutaneous panniculitis-like t-cell lymphoma    west nile virus    graft versus host disease
plasmodium falciparum malaria    panniculitis    lymphoblastic leukemia    stem cell leukemia
peripheral t-cell lymphoma    hypereosinophilic syndrome    acute lymphoblastic leukemia    rheumatoid arthritis
synovitis    acute myeloid leukemia    myeloid leukemia    leukemia
cutaneous t cell lymphoma    acute leukemia    behcet's disease    lymphoblastic lymphoma

10/11 Novoseek 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

Publications
for TRD@ gene

(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)
About This Section

PubMed articles for TRD@ gene, integrated from 9 sources (see all 142):
(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. (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. (1987)
  3. Lymphoid differentiation pathways can be traced by TCR delta rearrangements. (PubMed id 16081821)1, 9 Fronkova E....Hrusak O. (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. (2004)
  5. Antibody-dependent anti-cytomegalovirus activity of hu man gd T cells expressing CD16 (FcgRIIIa). (PubMed id 22180442)1 Couzi L....Dechanet-Merville J. (2012)
  6. Activated human gd T cells induce peptide-specific CD8 + T-cell responses to tumor-associated self-antigens. (PubMed id 21928126)1 Altvater B....Rossig C. (2012)
  7. Granulocyte colony-stimulating factor affects the dist ribution and clonality of TRGV and TRDV repertoire of T cells and graft-versus-h ost disease. (PubMed id 22171570)1 Xuan L....Liu Q. (2011)
  8. Nonhepatosplenic I^I' T-cell lymphomas represent a spec trum of aggressive cytotoxic T-cell lymphomas with a mainly extranodal presenta tion. (PubMed id 21753698)1 Garcia-Herrera A....Martinez A. (2011)
  9. Control of Plasmodium falciparum erythrocytic cycle: g d T cells target the red blood cell-invasive merozoites. (PubMed id 22045985)1 Costa G....Behr C. (2011)
  10. Role of I^I' T cells in West Nile virus-induced encepha litis: friend or foe? (PubMed id 22078709)1 Wang T. (2011)

External Searches for TRD@ gene

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
Aliases
Disorders
Free Text  
  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

Genome Databases showing TRD@ gene

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 6964 HGNC: 12252 euGenes: HUgn6964 ECgene: TRD@ H-InvDB: TRD@

Other Databases showing TRD@ gene

(According to HUGE)
About This Section
   --

Specialized Databases showing TRD@ gene

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
NameDescription
PharmGKB entry for TRD@ Pharmacogenomics, SNPs, Pathways
ATLAS Chromosomes in Cancer entry for TRD@ Genetics and Cytogenetics in Oncology and Haematology
IMGT entry for TRD@ The international ImMunoGeneTics information system® specializing in Immunoglobulins (IG), T cell receptors (TR), Major Histocompatibility Complex (MHC) and related proteins of the immune system (RPI) of human and other vertebrate species.

Intellectual Property
for TRD@ gene

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
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



Products
for TRD@ gene

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