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XAGE1A Gene

protein-coding   GIFtS: 37
GCID: GC0XM052255

X Antigen Family, Member 1A

(Previous names: G antigen, family D, 2, X antigen family, member 1)
(Previous symbols: GAGED2, XAGE1)
  See XAGE1A-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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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
X Antigen Family, Member 1A1 2     X Antigen Family, Member 11
GAGED21 2 3     CT12.1A2
XAGE11 2 3     CTP92
Cancer/Testis Antigen 12.12 3     Cancer/Testis Antigen Family 12, Member 1a2
CT12.12 3     Cancer/Testis Associated Protein2
G Antigen Family D Member 22 3     Protein XAGE-12
Cancer/Testis Antigen Family 121     X Antigen Family Member 12
G Antigen, Family D, 21     XAGE-13
Member 1a1     

External Ids:    HGNC: 41111   Entrez Gene: 6532192   Ensembl: ENSG000002043797   OMIM: 3007425   UniProtKB: Q9HD643   
ORGUL members:         

Export aliases for XAGE1A gene to outside databases

Previous GC identifers: GC0XM052546 GC0XP052532 GC0XP052258 GC0XP052238


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for XAGE1A Gene:
This gene is a member of the XAGE subfamily, which belongs to the GAGE family. The GAGE genes are expressed in a
variety of tumors and in some fetal and reproductive tissues. This gene is strongly expressed in Ewing's sarcoma,
alveolar rhabdomyosarcoma and normal testis. The protein encoded by this gene contains a nuclear localization
signal and shares a sequence similarity with other GAGE/PAGE proteins. Because of the expression pattern and the
sequence similarity, this protein also belongs to a family of CT (cancer-testis) antigens. Alternative splicing
of this gene, in addition to alternative transcription start sites, results in multiple transcript variants.
(provided by RefSeq, Jan 2010)

GeneCards Summary for XAGE1A Gene:
XAGE1A (X antigen family, member 1A) is a protein-coding gene. Diseases associated with XAGE1A include non-small cell lung carcinoma, and lung adenocarcinoma. An important paralog of this gene is XAGE1E.




(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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RefSeq DNA sequence at NCBI GenBank:
NC_000023.9  NT_011638.13  NC_018934.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the XAGE1A gene promoter:
         p53   AML1a   FOXC1   POU3F2   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for XAGE1A

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat XAGE1A


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

Entrez Gene cytogenetic band: Xp11.22   Ensembl cytogenetic band:  Xp11.22   HGNC cytogenetic band: Xp11.22

XAGE1A Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
XAGE1A gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XM052255:  view genomic region     (about GC identifiers)

Start:
52,255,219 bp from pter      End:
52,260,363 bp from pter
Size:
5,145 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., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: XAGE1_HUMAN, Q9HD64 (See protein sequence)
Recommended Name: X antigen family member 1  
Size: 81 amino acids; 9078 Da
Miscellaneous: According to PubMed:11992404, the transcription of XAGE1A is regulated by methylation of the CpG
island in the promoter, and four alternative RNA splicing variants, XAGE-1a, b, c have been identified
Caution: PubMed:17335148, examines the translation products of theses four XAGE1A transcripts, and finds that the
XAGE-1c transcript is possibly translated to 9- and 17-aa polypeptides and not to a protein consisting of 160
amino acids as shown in PubMed:11992404
Sequence caution: Sequence=AAG01401.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;
Sequence=AAH09538.2; Type=Erroneous initiation; Note=Translation N-terminally shortened; Sequence=CAC82986.1;
Type=Erroneous initiation; Note=Translation N-terminally shortened; Sequence=CAI40888.1; Type=Erroneous gene
model prediction; Sequence=CAI40895.1; Type=Erroneous gene model prediction; Sequence=CAI41526.1; Type=Erroneous
gene model prediction; Sequence=CAI41531.1; Type=Erroneous gene model prediction; Sequence=CAI41534.1;
Type=Erroneous gene model prediction;
Secondary accessions: A6NJ94 Q5JPN8 Q5JPP0 Q5JPP3 Q8WWG5 Q8WWG6 Q969J6
Alternative splicing: 2 isoforms:  Q9HD64-2   Q9HD64-4   (XAGE-1a and XAGE-1b mRNAs are produced by alternative promoter usage. However, for both isoforms, the translation initiator codon remains the same, generating an identical protein. XAGE-1b is the predominant transcript, compared to XAGE-1a)

Explore the universe of human proteins at neXtProt for XAGE1A: NX_Q9HD64

Explore proteomics data for XAGE1A at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys12
  • Modification sites at PhosphoSitePlus

  • See XAGE1A Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_001091061.2  NP_001091062.1  

    ENSEMBL proteins: 
     ENSP00000364750   ENSP00000364752   ENSP00000382698   ENSP00000413903  

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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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    1 InterPro protein domain:
     IPR008625 GAGE

    Graphical View of Domain Structure for InterPro Entry Q9HD64

    ProtoNet protein and cluster: Q9HD64

    1 Blocks protein domain: IPB008625 GAGE

    UniProtKB/Swiss-Prot: XAGE1_HUMAN, Q9HD64
    Similarity: Belongs to the GAGE family


    Find genes that share domains with XAGE1A           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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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    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for XAGE1A

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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
    extracellular2
    nucleus2
    cytosol1
    mitochondrion1

    (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 XAGE1A
    Interactions:

        Search GeneGlobe Interaction Network for XAGE1A

    1 Interacting protein for XAGE1A (Q9HD643) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    UBE2OQ9C0C93I2D: score=1 
    About this table

    (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
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for XAGE1A (XAGE1)



    (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 XAGE1A gene (3 alternative transcripts): 
    NM_001097592.2  NM_001097593.2  NM_001097591.1  

    Unigene Cluster for XAGE1A:

    X antigen family, member 1A
    Hs.546096  [show with all ESTs]
    Unigene Representative Sequence: BE876234
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000496463 ENST00000375595(uc004dqi.3) ENST00000375600 ENST00000375602
    ENST00000399800(uc004dqj.3 uc004dqk.3) ENST00000441417
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      QuantiFast Probe-based Assays in human, mouse, rat XAGE1A

    Additional mRNA sequence: NR_033253.1 

    6 DOTS entries:

    DT.100021393  DT.411576  DT.121280905  DT.411577  DT.91677782  DT.97825377 

    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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    XAGE1A expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    XAGE1A Expression
    About this image

    XAGE1A Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    XAGE1A Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.546096

    UniProtKB/Swiss-Prot: XAGE1_HUMAN, Q9HD64
    Tissue specificity: In normal tissues, highly expressed in testis. Expressed also in many different types of
    cancers: highly expressed in breast cancer, prostate cancer and many types of lung cancers, including squamous
    cell carcinoma, small cell carcinoma, non-small cell carcinoma, and adenocarcinoma, as well as in Ewing's cell
    lines, in some Ewing's sarcoma patient samples, and in one of one alveolar rhabdomyosarcoma patient sample

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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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    This gene was present in the common ancestor of human and chimp.

    Orthologs for XAGE1A gene from 1 species (see representative species )    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chimpanzee
    (Pan troglodytes)
    Mammalia --
    Uncharacterized protein
    53(a)
    1 → many
    X(53112384-53117541)


    ENSEMBL Gene Tree for XAGE1A (if available)
    TreeFam Gene Tree for XAGE1A (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for XAGE1A gene
    XAGE1E2  XAGE1B2  XAGE1D2  XAGE1C2  
    1 SIMAP similar gene for XAGE1A using alignment to 1 protein entry:     XAGE1_HUMAN:
    XAGE3

    Find genes that share paralogs with XAGE1A           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 XAGE1A    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr X posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs3709513061,2
    ----52255702(+) AAAAAA/GGAATT 3 -- int10--------

    HapMap Linkage Disequilibrium report for XAGE1A (52255219 - 52260363 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 7 variations for XAGE1A:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv994563CNV Loss20482838
    esv1004613CNV Loss20482838
    esv991419CNV Loss20482838
    esv1003754CNV Loss20482838
    esv28509CNV Gain+Loss19812545
    esv29848CNV Gain+Loss19812545
    nsv7445OTHER Inversion18451855

    Site Specific Mutation Identification with PCR Assays
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    (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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    OMIM gene information: 300742    OMIM disorders: --

    3 diseases for XAGE1A:    
    About MalaCards
    non-small cell lung carcinoma    lung adenocarcinoma    rhabdomyosarcoma

    1 disease from the University of Copenhagen DISEASES database for XAGE1A:
    non-small cell lung carcinoma

    Find genes that share disorders with XAGE1A           About GenesLikeMe


    Export disorders for XAGE1A 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 XAGE1A gene, integrated from 10 sources (see all 27):
    (articles sorted by number of sources associating them with XAGE1A)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Identification of XAGE-1 isoforms: predominant expression of XAGE-1b in testis and tumors. (PubMed id 17335148)1, 2 Sato S.... Nakayama E. (Cancer Immun. 2007)
    2. Characterization of overlapping XAGE-1 transcripts encoding a cancer testis antigen expressed in lung, breast, and other types of cancers. (PubMed id 12479262)1, 2 Egland K.A.... Pastan I. (Mol. Cancer Ther. 2002)
    3. The XAGE family of cancer/testis-associated genes: alignment and expression profile in normal tissues, melanoma lesions and Ewing's sarcoma. (PubMed id 11992404)1, 2 Zendman A.J.W....van Muijen G.N.P. (Int. J. Cancer 2002)
    4. XAGE-1, a new gene that is frequently expressed in Ewing's sarcoma. (PubMed id 10987281)1, 2 Liu X.F.... Pastan I. (Cancer Res. 2000)
    5. Novel genes in the PAGE and GAGE family of tumor antigens found by homology walking in the dbEST database. (PubMed id 10197611)1, 3 Brinkmann U.... Pastan I. (Cancer Res. 1999)
    6. Effects of CT-Xp gene knock down in melanoma cell lines. (PubMed id 23625514)1 Caballero O.L....Simpson A.J. (Oncotarget 2013)
    7. Heteroclitic serological response in esophageal and prostate cancer patients after NY-ESO-1 protein vaccination. (PubMed id 21413013)1 Kawada J....Nakayama E. (Int. J. Cancer 2012)
    8. NLS-dependent and insufficient nuclear localization of XAGE-1 splice variants. (PubMed id 21305256)1 Zhao R....Zhu N. (Oncol. Rep. 2011)
    9. mRNA expression of the XAGE-1 gene in human acute leukemia. (PubMed id 20178013)1 Ji Y....Gu L. (Int. J. Hematol. 2010)
    10. [Association of XAGE-1 gene expression with clinical characteristics of lung cancer]. (PubMed id 20704819)1 Lai Q....Sun Y. (Zhongguo Fei Ai Za Zhi 2010)

    (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: 653219 HGNC: 4111 Ensembl:ENSG00000204379 euGenes: HUgn653219 ECgene: XAGE1A
    H-InvDB: XAGE1A

    (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 XAGE1A 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 XAGE1A gene:
    Search GeneIP for patents involving XAGE1A

    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, eBioscience, antibodies-online, 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 genOway)
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