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TRD@ Gene

gene cluster GIFtS: 37

GC14P021963

T cell receptor delta locus
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: TCRD)

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc , and/or ⁷Ensembl, ⁸miRBase)
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Aliases
FLJ52034 ^²
FLJ52576 ^²
FLJ53668 ^²
FLJ54555 ^²
FLJ55265 ^²
FLJ56790 ^²
TCRD ^²
TCRDV1 ^¹, ²
TRD ^¹, ²

Descriptions
T cell receptor delta locus ^²
T-cell antigen receptor, delta polypeptide ^²
T-cell receptor, delta (V,D,J,C) ^²

External Ids
HGNC: 12252¹
Entrez Gene: 6964²

Search outside databases for aliases for TRD@ gene

Previous GC identifer: GC14U990058

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Gene Wiki entry for TRD@

(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 SABiosciences)
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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)

GeneLoc gene densities for chromosome 14 GeneLoc Exon Structure

GeneLoc location for GC14P021963: (about GC identifiers)

Start:	21,961,377 bp from pter
End:	22,005,409 bp from pter
Size:	44,033 bases
Orientation:	plus strand

TRD@ has overlapping exons with:

TRDV2 TRDC

RefSeq DNA sequence:

NC_000014.7 NT_026437.11

(According to ¹UniProtKB, and/or Ensembl, Phosphorylation sites according to ²Phosphosite, 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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Human Recombinant Proteins

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	Recombinant Proteins from Abcam (TCR gamma + TCR delta, TCR V delta 1, T Cell Receptor)
	Browse Abnova for Human Recombinant Proteins

Browse Origene for full length recombinant human proteins expressed in human HEK293 cells

Antibodies for TRD@:

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	Monoclonal and Polyclonal Antibodies from Abnova (TRD@)
	Novus Biologicals Antibody for TRD@

Assays for TRD@:

	Browse Invitrogen for biochemical assays
	Browse Kits and Assays available from Millipore
	Browse R&D Systems for biochemical assays
	Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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(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 from Invitrogen, Millipore, OriGene, and/or Abnova, 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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Inhib. RNA:		Browse Invitrogen for RNAi
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Browse Origene for 29mer shRNA kit in GFP-retroviral vector

Applied Biosystems Silencer® siRNAs for TRD@

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Clones:		Browse Clone Ranger at Invitrogen for clones
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Primers:

Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers

Browse Origene genome-wide validated SYBR primer pairs

8 MGI mutant phenotypes (inferred from 3 alleles) (MGI details for Tcrd):

cellular	digestive/alimentary	hematopoietic system	homeostasis/metabolism	immune system
respiratory system	skin/coat/nails	tumorigenesis

(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 ¹UniProtKB, ²MINT, and/or ³STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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(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 drugs & compounds from Enzo Life Sciences

Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for TRD@
2 Novoseek chemical compound relationships for TRD@ gene

Compound	Score	Articles	PubMed IDs for Articles with Shared Sentences (# sentences)
glucose 6-phosphate	14.45	1	11724354 (1)
polyacrylamide	12.23	1	16404354 (1)

About this table

(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 Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene)
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Inhib. RNA:		Browse Invitrogen for RNAi
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

Browse Origene for 29mer shRNA kit in GFP-retroviral vector

Browse siRNA at Sigma-Aldrich

Browse shRNA at Sigma-Aldrich

Explore Sigma-Aldrich super-pooled esiRNAs

Browse Origene for untagged/tagged cDNA clones in CMV expression vector

Additional cDNA sequence:

AF025420.1 AF512433.1 AF512434.1 AF512435.1 AF512436.1 AF512437.1 AF512438.1 AF512440.1

AF512441.1 AF512442.1 AF512443.1 AF512444.1 AF512445.1 AF512446.1 AM408137.1 AM408138.1

AM408140.1 AM408141.1 AM408142.1 AM408143.1 AM408144.1 AM408146.1 AM408147.1 AM408148.1

AM408149.1 AM408150.1 AM408151.1 AM408153.1 AM408154.1 AM408155.1 AM408158.1 AM408159.1

AM408161.1 AM408162.1 AM408163.1 AM408164.1 AM408165.1 AM408166.1 AM408167.1 AM408168.1

AM408169.1 M21784.1 S77589.1

24/89 DOTS entries (see all 89 ):

DT.97845698 DT.95363549 DT.91727333 DT.95258277 DT.102840523 DT.120744059 DT.75187431 DT.95070986

DT.96086423 DT.120744259 DT.102845570 DT.95189905 DT.102840520 DT.92338901 DT.95228736 DT.120744006

DT.97847759 DT.75187239 DT.100028649 DT.95292892 DT.91863912 DT.97834997 DT.101977961 DT.120744011

highest scoring ESTs for TRD@:

AF451720 AF459596 AF459597 AF459598 AF459599 AF459600 M21784 U91168 M21624 AF512433

Unigene Clusters for TRD@:

T cell receptor delta locus

Hs.74647 [show with all ESTs], Hs.540121 [show with all ESTs], Hs.713514 [show with all ESTs]

Unigene Representative Sequences: X73617, BI835791, BG389428

GeneLoc Exon Structure

(Experimental results according to ¹GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to ²GeneAnnot , ³GeneTide , 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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TRD@ expression in normal and diseased human tissues

Applied Biosystems TaqMan ® Gene Expression Assays for TRD@

¹ / ² / ³

10 probe-sets matching TRD@ gene

Affymetrix probe-set	Array	# genes	Sensitivity	Specificity	Correlation	Length	Gb_Accession	Consensus	Uniqueness	Score	Rank
Affymetrix probe-set	Array	GeneAnnot data			GeneNote data		GeneTide data
38917_at²^{, 3}	U95-A	1	1.00	1.00	0.99	0.76	X73617	0.40	0.05	0.29	2
1110_at²^{, 3}	U95-A	2	1.00	0.50	0.99	1.31	M21624	0.60	0.38	0.50	1
213830_at²^{, 3}	U133-A	1	1.00	1.00	--	--	AW007751	0.40	0.33	0.37	1
234440_at²	U133-B	2	1.00	0.50	--	--	--	--	--	--	--
217143_s_at²^{, 3}	U133-A	2	1.00	0.50	--	--	X06557	0.40	0.34	0.37	1
216191_s_at²^{, 3}	U133-A	4	1.00	0.43	--	--	X72501	0.40	0.36	0.38	1
213830_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--
234440_at²	U133Plus2	2	1.00	0.50	--	--	--	--	--	--	--
217143_s_at²	U133Plus2	2	1.00	0.50	--	--	--	--	--	--	--
216191_s_at²	U133Plus2	4	1.00	0.43	--	--	--	--	--	--	--

GeneDecks TRD@ for binary patterns associated with the probe-sets selected above

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Data from

(Publications) and GNF BioGPS
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CGAP SAGE TAG: AAAGGAGAAG

SOURCE GeneReport for Unigene clusters: Hs.74647 Hs.540121 Hs.713514
Expression variation in blood from EXPOLDB for TRD@

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD and/or ⁵MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
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Orthologs for TRD@ gene from 1 species

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
mouse (Mus musculus)	Tcrd⁵	14 (19.50 cM)	T-cell receptor delta chain	--	-

About this table Species with no ortholog for TRD@

(Paralogs according to ¹HomoloGene
and ²Ensembl, Pseudogenes according to ³Pseudogene.org)
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(According to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
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(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: 186810

10/11 Novoseek disease relationships for TRD@ gene (see all 11 )

Disease	Score	Articles	PubMed IDs for Articles with Shared Sentences (# sentences)
minimal residual disease	84.59	10	12774926 (1), 12970784 (1), 16247752 (1), 10025893 (1) (see all 8)
t-all	80.43	11	10025894 (2), 19176062 (1), 16404354 (1), 1402666 (1) (see all 8)
lymphoblastic leukemia acute	71.89	10	12774926 (2), 10025893 (1), 1328776 (1), 7606000 (1) (see all 7)
leukemia	57.67	10	8391615 (1), 2011404 (1), 1328863 (1), 8756082 (1) (see all 9)
acute leukemia	46.44	1	8756082 (1)
lymphoblastic leukemia acute childhood	44.18	3	16404354 (1), 12860036 (1), 11876997 (1)
lymphoma	32.69	3	8756082 (2), 9209365 (1)
synovitis	22.00	1	1825059 (1)
chromosomal aberrations	9.52	1	8827877 (1)
rheumatoid arthritis	5.48	3	9098458 (2), 1396965 (1)

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1 PharmGKB disease relationship for TRD@ gene

Disease	PharmGKB Relations	PubMed IDs for articles supporting these relationships
Leukemia, Lymphocytic, Acute, L1	FA GN	12730115

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Human Gene Mutation Database: TRD@

(Possibly Related Articles in Doctor's Guide)
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(in PubMed. Associations of this gene to articles via ¹Novoseek, ²HGNC, ³Entrez Gene, ⁴UniProtKB/Swiss-Prot, ⁵UniProtKB/TrEMBL, ⁶GAD, and/or ⁷PharmGKB)
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10/129 PubMed articles for TRD@ gene (see all 129 ):

Use of a variable alpha region to create a functional T-cell receptor delta chain. (PubMed id 2456576)^{2, 3} Guglielmi P....Bensussan A. (1988)
A new T-cell receptor gene located within the alpha locus and expressed early in T-cell differentiation. (PubMed id 2439914)^{2, 3} Chien Y.H....Davis M.M. (1987)
Lymphoid differentiation pathways can be traced by TCR delta rearrangements. (PubMed id 16081821)^{1, 3} Fronkova E....Hrusak O. (2005)
Vdelta2-Jalpha rearrangements are frequent in precursor-B-acute lymphoblastic leukemia but rare in normal lymphoid cells. (PubMed id 14656882)^{1, 3} Szczepanski T....van Dongen J.J. (2004)
Altered cord blood gammadelta T cell repertoire in Nigeria: possible impacts of environmental factors on neonatal immunity. (PubMed id 18440637)³ Cairo C....Pauza C.D. (2008)
Dysregulation of the host mevalonate pathway during early bacterial infection activates human TCR gamma delta cells. (PubMed id 18624305)³ Kistowska M....De Libero G. (2008)
Identification of human T cell receptor gammadelta-recognized epitopes/proteins via CDR3delta peptide-based immunobiochemical strategy. (PubMed id 18321859)³ Chen H....He W. (2008)
T-cell receptor repertoire of circulating gamma delta T-cells in Takayasu's arteritis. (PubMed id 16307908)³ Chauhan S.K....Nityanand S. (2006)
Deregulation of cyclin D2 by juxtaposition with T-cell receptor alpha/delta locus in t(12;14)(p13;q11)-positive childhood T-cell acute lymphoblastic leukemia. (PubMed id 16548914)³ Karrman K....Johansson B. (2006)
Human alpha beta and gamma delta thymocyte development: TCR gene rearrangements, intracellular TCR beta expression, and gamma delta developmental potential--differences between men and mice. (PubMed id 16424183)³ Joachims M.L....Thompson L.F. (2006)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
Aliases
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, and/or H-InvDB)
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(According to HUGE)
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(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
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Name	Description
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.

Licensable Technologies for TRD@
(Available from WIS Yeda, Salk, Tufts)

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(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)
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Products for TRD@:

TaqMan ® Gene Expression Assays

TaqMan ® Genotyping Assays

Free SNP selection tool

Invitrogen iPath Pathways	Invitrogen BLOCK-iT™ RNAi
Invitrogen Antibodies	Invitrogen Assays
Invitrogen Clones	Invitrogen Q-PCR Products
Invitrogen Human Recombinant Kinases	Invitrogen Custom Antibody and Peptide Service
Invitrogen Proteins / Assays / Screening Services	Search Invitrogen catalog for TRD@-related products

	Millipore Custom Antibody & Bulk Services
	Millipore Preclinical / Clinical Development Services
	Millipore Immunoassay Services
	Millipore Target Screening & Profiling Services

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Search OriGene for TRD@

Search Tocris compounds for TRD@

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Antibodies for TRD@

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TRD@ Gene

gene cluster GIFtS: 37

Aliases &
Descriptions
for TRD@

Summaries
for TRD@

Genomic Location
for TRD@

Proteins
for TRD@

Protein Domains/
Families
for TRD@

Gene Function
for TRD@

Pathways & Interactions
for TRD@

Drugs & Compounds
for TRD@

Transcripts
for TRD@

Expression
for TRD@

Orthologs
for TRD@

Paralogs
for TRD@

SNPs/Variants
for TRD@

Disorders & Mutations
for TRD@

Medical News
for TRD@

Publications
for TRD@

Search for TRD@

Genome Databases showing TRD@

Other Databases showing TRD@

Specialized Databases showing TRD@

Licensable Technologies
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Services
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Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

TRD@ Gene

gene cluster GIFtS: 37

Aliases & Descriptionsfor TRD@

Summariesfor TRD@

Genomic Locationfor TRD@

Proteinsfor TRD@

Protein Domains/Familiesfor TRD@

Gene Functionfor TRD@

Pathways & Interactionsfor TRD@

Drugs & Compoundsfor TRD@

Transcriptsfor TRD@

Expression for TRD@

Orthologsfor TRD@

Paralogsfor TRD@

SNPs/Variantsfor TRD@

Disorders & Mutationsfor TRD@

Medical Newsfor TRD@

Publicationsfor TRD@

Search for TRD@

Genome Databases showing TRD@

Other Databases showing TRD@

Specialized Databases showing TRD@

Licensable Technologiesfor TRD@

Servicesfor TRD@

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

Aliases &
Descriptions
for TRD@

Summaries
for TRD@

Genomic Location
for TRD@

Proteins
for TRD@

Protein Domains/
Families
for TRD@

Gene Function
for TRD@

Pathways & Interactions
for TRD@

Drugs & Compounds
for TRD@

Transcripts
for TRD@

Expression
for TRD@

Orthologs
for TRD@

Paralogs
for TRD@

SNPs/Variants
for TRD@

Disorders & Mutations
for TRD@

Medical News
for TRD@

Publications
for TRD@

Licensable Technologies
for TRD@

Services
for TRD@