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

TRAV39 Gene

protein-coding   GIFtS: 18
GCID: GC14P022773

T cell receptor alpha variable 39
  Search for TRAV39
in
MalaCards
our new
 Human Malady Compendium 
Biological research products
for TRAV39    

Aliases
for TRAV39 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
T Cell Receptor Alpha Variable 391 2
TCRAV27S11 2
TCRAV39S11 2

External Ids:    HGNC: 121391   Entrez Gene: 286422   Ensembl: ENSG000002118187   
ORGUL members:         
NONCODE:n335847    

Export aliases for TRAV39 gene to outside databases

Previous GC identifers: GC14U990279 GC14P020762 GC14P021841


Summaries
for TRAV39 gene

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

Genomic Views
for TRAV39 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 TRAV39
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
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Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRAV39


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

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

TRAV39 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRAV39 gene location

GeneLoc information about chromosome 14         GeneLoc Exon Structure

GeneLoc location for GC14P022773:  view genomic region     (about GC identifiers)

Start:
 22,771,939 bp from pter      End:
 22,772,438 bp from pter
Size:
 500 bases      Orientation:
 plus strand

Proteins
for TRAV39 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: --
TRAV39 Protein expression data from MOPED and PaxDb: --

ENSEMBL proteins: 
 ENSP00000450865  

Human Recombinant Protein Products: 
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Protein Domains /
Families
for TRAV39 gene

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

Function
for TRAV39 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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QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat TRAV39
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Browse SwitchGear 3'UTR luciferase reporter plasmids
Inhib. RNA
Products:    		Browse for Gene Knock-down Tools from EMD Millipore
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Search QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat TRAV39

Gene Editing
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Clone
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Cell Line
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In Situ Assay
Products:   
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Pathways & Interactions
for TRAV39 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 TRAV39

Drugs & Compounds
for TRAV39 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
Browse Small Molecules at EMD Millipore
Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for TRAV39
Search CenterWatch for drugs/clinical trials and news about TRAV39 

Transcripts
for TRAV39 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
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000390466(uc010ajq.1)

miRNA
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Browse SwitchGear 3'UTR luciferase reporter plasmids
Inhib. RNA
Products:     		Browse for Gene Knock-down Tools from EMD Millipore
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Browse OriGene siRNA
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Clone
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OriGene custom cloning services – gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
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Primer
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Browse OriGene validated miRNA SYBR primer pairs
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  Search QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TRAV39
  Search QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TRAV39

1 AceView cDNA sequence:

CD704804 

GeneLoc Exon Structure


Expression
for TRAV39 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

TRAV39 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 TRAV39
Primer
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Search QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TRAV39
Search QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TRAV39
In Situ
Assay Products: 
 		Search Advanced Cell Diagnostics for RNAscope RNA in situ hybridization assays for TRAV39

Orthologs
for TRAV39 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
   --

ENSEMBL Gene Tree for TRAV39 (if available)
TreeFam Gene Tree for TRAV39 (if available) 

Paralogs
for TRAV39 gene

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
Paralogs for TRAV39 gene
TRAV342  TRAV242  TRAV212  TRAV412  TRAV12-32  TRAV62  TRAV222  TRAV72  
TRAV12-12  TRAV172  TRAV23DV62  TRAV252  TRAV12-22  TRAV13-22  TRAV302  TRAV202  
TRAV102  TRAV29DV52  TRAV272  TRAV13-12  TRAV352  TRAV52  TRAV36DV72  

TRAV39 for paralogs           About GeneDecksing



Genomic Variants
for TRAV39 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
SABiosciences Cancer Mutation PCR Assays
Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TRAV39
DNA2.0 Custom Variant and Variant Library Synthesis for TRAV39

Disorders / Diseases
for TRAV39 gene

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
TRAV39 for disorders           About MalaCards

TRAV39 for disorders           About GeneDecksing

Human Genome Epidemiology (HuGE) Navigator: TRAV39 (1 document)

Export disorders for TRAV39 gene to outside databases

Publications
for TRAV39 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 article for TRAV39 gene integrated from 9 sources:
(articles sorted by number of sources associating them with TRAV39)		    Utopia: connect your pdf to the dynamic
world of online information

  1. The human T-cell receptor TCRAC/TCRDC (C alpha/C delta) region: organization, sequence, and evolution of 97.6 kb of DNA. (PubMed id 8188290)1, 3 Koop B.F.... Hood L. (1994)

External Searches for TRAV39 gene

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

Genome Databases showing TRAV39 gene

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 28642 HGNC: 12139 AceView: TRAV39 Ensembl:ENSG00000211818 euGenes: HUgn28642
ECgene: TRAV39 H-InvDB: TRAV39

Other Databases showing TRAV39 gene

(According to HUGE)
About This Section
   --

Specialized Databases showing TRAV39 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 TRAV39 Pharmacogenomics, SNPs, Pathways
IMGT entry for TRAV39 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 TRAV39 gene

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for TRAV39 gene:
Search GeneIP for patents involving TRAV39

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



Products
for TRAV39 gene

(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section

 
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