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

TDRG1 Gene

RNA gene   GIFtS: 28
GCID: GC06P040303

Testis Development Related 1 (Non-Protein Coding)

  See related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Subcategory (RNA class): lncRNA

Quality score for this RNA gene is 8

Aliases
Testis Development Related 1 (Non-Protein Coding)1 2
Long Intergenic Non-Protein Coding RNA 5321
LINC005322

External Ids:    HGNC: 436421   Entrez Gene: 7322532   Ensembl: ENSG000002040917   UniProtKB: Q3Y4523   
ORGUL members:         
NONCODE14:n368726 n368725 n369376 n368608 n369375 see all 7      

Export aliases for TDRG1 gene to outside databases

Previous GC identifer: GC06P040456


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

GeneCards Summary for TDRG1 Gene: 
TDRG1 (testis development related 1 (non-protein coding)) is an RNA gene, and is affiliated with the lncRNA class. Diseases associated with TDRG1 include testicular cancer.


(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000006.11  NC_018917.2  NT_007592.15  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TDRG1 gene promoter:
         AP-2rep   TBP   STAT1   GATA-1   E47   POU2F1   POU2F1a   Hand1   c-Myb   
         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 TDRG1


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

Entrez Gene cytogenetic band: 6p21.2   Ensembl cytogenetic band:  6p21.2   HGNC cytogenetic band: 6p21.2

TDRG1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TDRG1 gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06P040303:  view genomic region     (about GC identifiers)

Start:
40,302,693 bp from pter      End:
40,347,631 bp from pter
Size:
44,939 bases      Orientation:
plus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for TDRG1

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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.,
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About This Section

UniProtKB/Swiss-Prot: TDRG1_HUMAN, Q3Y452 (See protein sequence)
Recommended Name: Testis development-related protein 1  
Size: 100 amino acids; 10472 Da
Subcellular location: Cytoplasm
Developmental stage: Undetectable in the fetal testis, shows the highest expression level in post-puberty testis,
with the expression levels decreasing afterwards with aging

Explore the universe of human proteins at neXtProt for TDRG1: NX_Q3Y452

TDRG1 Protein expression data from MOPED1, PaxDb2 and MAXQB3 : --

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
HGNC Gene Families: 
LNCRNA: Long non-coding RNAs

ProtoNet protein and cluster: Q3Y452


(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,
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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
About This Section

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(Pathways according to EMD Millipore, 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 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 Oct 2013 via Entrez Gene).
About This Section



Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TDRG1

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
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(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,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
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About This Section

Unigene Cluster for TDRG1:

Testis development related 1 (non-protein coding)
Hs.180197  [show with all ESTs]
Unigene Representative Sequence: BC071820
4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000451810 ENST00000448559 ENST00000448433 ENST00000373170(uc003opg.2)

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Additional mRNA sequence: 

BC033995.2 BC042123.1 BC071820.1 DQ168992.1 NR_024015.1 

6 DOTS entries:

DT.413661  DT.40112098  DT.92417437  DT.100739587  DT.121396029  DT.99930416 

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™, 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

Expression evidence for TDRG1:NONCODE

TDRG1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GTCTTGTTGA
TDRG1 Expression
About this image


Genevestigator expression for TDRG1

SOURCE GeneReport for Unigene cluster: Hs.180197

UniProtKB/Swiss-Prot: TDRG1_HUMAN, Q3Y452
Tissue specificity: Expressed in the testis but not in any other non-reproductive tissues (at protein level).
Mainly located in spermatogenic cells in seminiferous tubules of adult testis

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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)
About This Section
  --

ENSEMBL Gene Tree for TDRG1 (if available)
TreeFam Gene Tree for TDRG1 (if available)

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

(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) 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

10/80 SNPs in TDRG1 are shown (see all 80)    About this table     
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 6 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1500052021,2
--40344315(+) CAAATA/GTCCAT 1 -- us2k10--------
rs1455864811,2
--40344395(+) CACAGG/TCTATG 1 -- us2k10--------
rs1488756891,2
--40344422(+) AAAATA/GTTATG 1 -- us2k10--------
rs47143421,2
C,F,A,H--40344459(+) ggttaC/Tctatt 1 -- us2k127Minor allele frequency- T:0.47NS EA NA WA CSA 2702
rs47143431,2
C,F,A,H--40344526(+) ccaatC/Tagagg 1 -- us2k1 tfbs329Minor allele frequency- N:0.00NS EA NA WA CSA 3162
rs1810563011,2
--40344554(+) CGGGGA/TGTGGC 1 -- us2k10--------
rs1151208921,2
F--40344564(+) CTGCTT/GAATGA 1 -- us2k11Minor allele frequency- G:0.03WA 118
rs1441505761,2
--40344578(+) CGTTAC/GTCTGT 1 -- us2k10--------
rs585785261,2
C,F--40344623(+) GTGATT/GTATAA 1 -- us2k13Minor allele frequency- G:0.09WA NA EA 358
rs753013681,2
C,F--40344638(+) GTTTCT/AGCTGC 1 -- us2k13Minor allele frequency- A:0.07WA CSA 122

HapMap Linkage Disequilibrium report for TDRG1 (40302693 - 40347631 bp)

Structural Variations
     Database of Genomic Variants (DGV) 1 variation for TDRG1:    About this table     
Variant IDTypeSubtypePubMed ID
nsv5273CNV Loss18451855

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
2 diseases for TDRG1:    About MalaCards
testicular cancer    


TDRG1 for disorders           About GeneDecksing

Genetic Association Database (GAD): TDRG1

Export disorders for TDRG1 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)
About This Section

PubMed articles for TDRG1 gene integrated from 9 sources:
(articles sorted by number of sources associating them with TDRG1)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Characterization of a novel human testis-specific gen e: testis developmental related gene 1 (TDRG1). (PubMed id 22123530)1, 2, 3 Jiang X....Tang Y. (2011)
  2. [Expression of human testis development related gene 1 in testicular cancer detected by tissue microarray]. (PubMed id 21243750)1 Chen H.Y....Tang Y.X. (2010)
  3. [Molecular cloning of a novel human testis-specific g ene TDRG1]. (PubMed id 19403381)3 Yin G.M....Zeng Q. (2009)
  4. The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)2 Mungall A.J.... Beck S. (2003)

(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)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 732253 HGNC: 43642 Ensembl:ENSG00000204091 euGenes: HUgn732253 ECgene: TDRG1
H-InvDB: TDRG1

(According to HUGE)
About This Section
  --

(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
  --

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for TDRG1 gene:
Search GeneIP for patents involving TDRG1

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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, 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
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