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CSAG3 Gene

RNA gene   GIFtS: 32
GCID: GC0XM151876

CSAG Family, Member 3

(Previous names: CSAG family, member 3A)
(Previous symbol: CSAG3A)
  See CSAG3-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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Subcategory (RNA class): lncRNA

Quality score for this RNA gene is 3

Aliases
CSAG Family, Member 31 2     CT24.22 3
CSAG3A1 2 3     Chondrosarcoma-Associated Gene 2/3 Protein2
CSAG Family, Member 3A1 2     Taxol Resistance Associated Gene 32
Cancer/Testis Antigen 24.22 3     TRAG-33
Taxol-Resistant-Associated Gene 3 Protein2 3     TRAG33

External Ids:    HGNC: 262371   Entrez Gene: 3899032   Ensembl: ENSG000001974637   UniProtKB: Q9Y5P23   
ORGUL members:         

Export aliases for CSAG3 gene to outside databases

Previous GC identifers: GC0XM151630 GC0XP140729


(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 CSAG3 Gene:
CSAG3 (CSAG family, member 3) is an RNA gene, and is affiliated with the lncRNA class. Diseases associated with CSAG3 include lung adenocarcinoma, and chondrosarcoma. An important paralog of this gene is CSAG2.

UniProtKB/Swiss-Prot: CSAG2_HUMAN, Q9Y5P2
Function: Drug-resistance related protein, its expression is associated with the chemotherapy resistant and
neoplastic phenotype. May also be linked to the malignant phenotype




(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:
   Regulatory transcription factor binding sites in the CSAG3 gene promoter:
         TBP   TFIID   FOXJ2 (long isoform)   Olf-1   FOXJ2   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for CSAG3

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CSAG3


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

Entrez Gene cytogenetic band: Xq28   Ensembl cytogenetic band:  Xq28   HGNC cytogenetic band: Xq28

CSAG3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CSAG3 gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XM151876:  view genomic region     (about GC identifiers)

Start:
151,876,743 bp from pter      End:
151,883,038 bp from pter
Size:
6,296 bases      Orientation:
minus strand

(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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, 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/Swiss-Prot: CSAG2_HUMAN, Q9Y5P2 (See protein sequence)
Recommended Name: Chondrosarcoma-associated gene 2/3 protein  
Size: 127 amino acids; 14430 Da
Secondary accessions: O75605 Q0VDC3 Q96IU8
Alternative splicing: 3 isoforms:  Q9Y5P2-1   Q9Y5P2-2   Q9Y5P2-3   

Explore the universe of human proteins at neXtProt for CSAG3: NX_Q9Y5P2

Explore proteomics data for CSAG3 at MOPED


See CSAG3 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins (2 alternative transcripts): 
NP_001123298.1  NP_001123300.1  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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ProtoNet protein and cluster: Q9Y5P2


(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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Molecular Function:

     UniProtKB/Swiss-Prot Summary: CSAG2_HUMAN, Q9Y5P2
Function: Drug-resistance related protein, its expression is associated with the chemotherapy resistant and
neoplastic phenotype. May also be linked to the malignant phenotype

Animal Models:

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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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Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
cytosol2
nucleus2

(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 CSAG3
Interactions:

    Search GeneGlobe Interaction Network for CSAG3

Gene Ontology (GO): 1 biological process term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0042493response to drug TAS10095106

Find genes that share ontologies with CSAG3           About GenesLikeMe



(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
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Browse Tocris compounds for CSAG3 (CSAG2)



(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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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REFSEQ mRNAs for CSAG3 gene (3 alternative transcripts): 
NM_001129826.1  NM_001129828.1  NM_203311.1  

2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000415810(antisense) ENST00000356911(antisense)
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22 AceView cDNA sequences:

CR595652 BF971015 BC007228 BE264649 BM760578 CB985982 AW615564 NM_203311 
AW247201 BM808060 AF268421 AF268420 BX352353 NM_004909 AF080246 BF792369 
AW248224 AF136715 BG216288 BX400585 BX349120 BU600543 

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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Expression evidence for CSAG3:none

CSAG3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
CSAG3 Expression
About this image

CSAG3 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

CSAG3 Protein Expression

UniProtKB/Swiss-Prot: CSAG2_HUMAN, Q9Y5P2
Tissue specificity: Weakly expressed in kidney. Expressed in various tumor cell lines including carcinomas,
myeloid and lymphoid malignancies, melanomas and prostate cancer. Overexpressed in taxol-resistant breast cancer
line MDA 435TR and the doxorubicin-resistant multiple myelanoma lines RPMI-8226/Dox40 and RPMI-8226/MDR10V

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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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  --

ENSEMBL Gene Tree for CSAG3 (if available)
TreeFam Gene Tree for CSAG3 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for CSAG3 gene
CSAG2  
1 SIMAP similar gene for CSAG3 using alignment to 1 protein entry:     CSAG2_HUMAN:
CSAG1

Find genes that share paralogs with CSAG3           About GenesLikeMe



(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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1 SNPs for CSAG3    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr X posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs2006943761,2
----151877125(+) AACCTA/GGAAGG 2 -- int10--------

HapMap Linkage Disequilibrium report for CSAG3 (151876743 - 151883038 bp)

Structural Variations
     Database of Genomic Variants (DGV) 1 variation for CSAG3:    About this table    
Variant IDTypeSubtypePubMed ID
dgv2493e1CNV Complex17122850

Site Specific Mutation Identification with PCR Assays
Search QIAGEN SeqTarget long-range PCR primers for resequencing CSAG3
DNA2.0 Custom Variant and Variant Library Synthesis for CSAG3

(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.)
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3 diseases for CSAG3:    
About MalaCards
lung adenocarcinoma    chondrosarcoma    esophageal cancer


Find genes that share disorders with CSAG3           About GenesLikeMe


Export disorders for CSAG3 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 CSAG3 gene, integrated from 10 sources (see all 19):
(articles sorted by number of sources associating them with CSAG3)
    Utopia: connect your pdf to the dynamic
world of online information

  1. TRAG-3, a novel gene, isolated from a taxol-resistant ovarian carcinoma cell line. (PubMed id 10095106)1, 2 Duan Z.... Seiden M.V. (Gene 1999)
  2. Human tumor antigen-specific helper and regulatory T cells share common epitope specificity but exhibit distinct T cell repertoire. (PubMed id 20483736)1 Fourcade J....Zarour H.M. (J. Immunol. 2010)
  3. Coordinated expression of clustered cancer/testis genes encoded in a large inverted repeat DNA structure. (PubMed id 18395366)1 Bredenbeck A....Losch F.O. (Gene 2008)
  4. Taxol-resistance-associated gene-3 (TRAG-3/CSAG2) expression is predictive for clinical outcome in ovarian carcinoma patients. (PubMed id 17216190)1 Materna V....Lage H. (Virchows Arch. 2007)
  5. Spontaneous CD4+ T cell responses against TRAG-3 in patients with melanoma and breast cancers. (PubMed id 16888034)1 Janjic B....Zarour H.M. (J. Immunol. 2006)
  6. Expression of the TRAG-3 gene in human esophageal cancer: the frequent synchronous expression of MAGE-3 gene. (PubMed id 16685391)1 Ohta M....Mori M. (Oncol. Rep. 2006)
  7. Spontaneous T-cell responses against peptides derived from the Taxol resistance-associated gene-3 (TRAG-3) protein in cancer patients. (PubMed id 15580499)1 Meier A....Thor Straten P. (Cancer Immunol. Immunother. 2005)
  8. Epigenetic regulation of the taxol resistance-associated gene TRAG-3 in human tumors. (PubMed id 15120907)1 Yao X....Hoffman A.R. (Cancer Genet. Cytogenet. 2004)
  9. [In vitro induction of immune response by dendritic cells pulsed with TRAG-3-derived cytotoxic T lymphocyte epitope]. (PubMed id 15733385)1 Zhu B....Wu Y.Z. (Zhonghua Zhong Liu Za Zhi 2004)
  10. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)

(in PubMed, OMIM, and NCBI Bookshelf)
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 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)
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Entrez Gene: 389903 HGNC: 26237 AceView: CSAG2 Ensembl:ENSG00000197463 euGenes: HUgn389903
ECgene: CSAG3 H-InvDB: CSAG3

(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 CSAG3 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 CSAG3 gene:
Search GeneIP for patents involving CSAG3

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, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, 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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