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

XAGE1D Gene

protein-coding   GIFtS: 44
GCID: GC0XM052545

X antigen family, member 1D

 Explore 17 diseases affiliated with
XAGE1D via our new
 Human Malady Compendium 
Biological research products
for XAGE1D
    

(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
X Antigen Family, Member 1D1 2     CT12.1d1
Cancer/Testis Antigen 12.12 3     CT12.1D2
Protein XAGE-12 3     CTP92
CT12.12 3     Cancer/Testis Antigen Family 12, Member 1d2
GAGED23 5     Cancer/Testis Associated Protein2
XAGE13 5     G Antigen Family D Member 22

External Ids:    HGNC: 215081   Entrez Gene: 95032   Ensembl: ENSG000002043767   OMIM: 3002895   UniProtKB: Q9HD643   
ORGUL members:         
NONCODE:n409116    

Export aliases for XAGE1D gene to outside databases

Previous GC identifer: GC0XU900701


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

Entrez Gene summary for XAGE1D:
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)

Gene Wiki entry for XAGE1D


(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
RefSeq DNA sequence:
NC_000023.10  NT_011630.14  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for XAGE1D
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidXAGE1D promoter sequence
   Search SABiosciences Chromatin IP Primers for XAGE1D

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat XAGE1D


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

XAGE1D Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
XAGE1D gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XM052545:  view genomic region     (about GC identifiers)

Start:
52,528,159 bp from pter      End:
52,533,303 bp from pter
Size:
5,145 bases      Orientation:
minus strand

(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/Swiss-Prot: GAGD2_HUMAN, Q9HD64 (See protein sequence)
Recommended Name: G antigen family D member 2  
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 XAGE1D: NX_Q9HD64

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9HD64

  • XAGE1D Protein expression data from MOPED and PaxDb: --
    REFSEQ proteins (2 alternative transcripts): 
    NP_065144.2  NP_597673.1  

    ENSEMBL proteins: 
     ENSP00000364728   ENSP00000364097   ENSP00000379755   ENSP00000389220  

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

    XAGE1D for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR008625 GAGE

    Graphical View of Domain Structure for InterPro Entry Q9HD64

    ProtoNet protein and cluster: Q9HD64

    1 Blocks protein family: IPB008625 GAGE

    UniProtKB/Swiss-Prot: GAGD2_HUMAN, Q9HD64
    Similarity: Belongs to the GAGE family


    (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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    (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 XAGE1D

    1 Interacting protein for XAGE1D (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 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 XAGE1D
    Search CenterWatch for drugs/clinical trials and news about XAGE1D / GAGD2 

    (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,
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    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for XAGE1D gene (3 alternative transcripts): 
    NM_020411.2  NM_133430.2  NM_133431.3  

    Unigene Clusters for XAGE1D:

    X antigen family, member 1D
    Hs.112208  [show with all ESTs], Hs.584511
    Unigene Representative Sequences: BG191783, NM_133430
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000478767 ENST00000375572(uc004dqq.3) ENST00000375578 ENST00000374959
    ENST00000396497(uc004dqr.3 uc004dqs.3) ENST00000438079

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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for XAGE1D
    OriGene shRNA RFP: XAGE1D
    OriGene siRNA: XAGE1D
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat XAGE1D
    Clone
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat XAGE1D 
    Primer
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat XAGE1D
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat XAGE1D

    13 DOTS entries:

    DT.100021393  DT.411576  DT.91677790  DT.100736412  DT.91677782  DT.97825377  DT.121280905  DT.121280912 
    DT.411577  DT.99982060  DT.121290883  DT.121290887  DT.91677799 

    24/45 AceView cDNA sequences (see all 45):

    BE881023 AF251237 NM_020411 NM_133430 NM_133431 AW386187 AJ318878 BX101350 
    AJ318879 AA620697 AA948244 BC009538 BU564534 BE875341 AJ290447 AA758618 
    AI954712 BU182421 AI631681 BT007099 AA483082 AA412359 AI205793 BG216048 

    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

    XAGE1D expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GAAGGTGATC

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image
    Genevestigator expression for XAGE1D

    SOURCE GeneReport for Unigene clusters: Hs.112208 Hs.584511

    UniProtKB/Swiss-Prot: GAGD2_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
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for XAGE1D

    (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 XAGE1D (if available)
    TreeFam Gene Tree for XAGE1D (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for XAGE1D gene
    XAGE1C1 2  XAGE1E1 2  XAGE1A1 2  XAGE1B1 2  
    1 SIMAP similar gene for XAGE1D using alignment to 1 protein entry:     GAGD2_HUMAN:
    XAGE3

    XAGE1D for paralogs           About GeneDecksing


    5 Pseudogenes.org Pseudogenes for XAGE1D
    PGOHUM00000241307 PGOHUM00000241764 PGOHUM00000241774 PGOHUM00000241783 PGOHUM00000241794


    (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

    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 15 variations for XAGE1D
         14 CNVs: 83524 73977 83525 83526 96688 73976 67978 96689 83523 83522 96685 96687 96684 96686
         1 Inversion: 37381
    SABiosciences Cancer Mutation PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    XAGE1D for disorders           About GeneDecksing

    OMIM gene information: 300289    OMIM disorders: --

    17 diseases for XAGE1D:    About MalaCards
    alveolar rhabdomyosarcoma    rhabdomyosarcoma    sarcoma    non-small cell lung carcinoma
    testicular cancer    small cell carcinoma    squamous cell carcinoma    melanoma metastasis
    lung cancer    adenocarcinoma    prostate cancer    lung adenocarcinoma
    melanoma    lung carcinoma    prostatitis    carcinoma
    breast cancer

    1 disease from the University of Copenhagen DISEASES database for XAGE1D:
    non-small cell lung carcinoma

    10/11 Novoseek disease relationships for XAGE1D gene (see all 11)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    adenocarcinoma lung 68.8 4 11753648 (3)
    ewings sarcoma 68.7 3 11753648 (1), 11774264 (1), 12479262 (1)
    testicular cancer 68.5 3 11753648 (1), 12479262 (1), 17335148 (1)
    small cell lung cancer 49.6 1 12479262 (1)
    cancer lung 45.6 2 12479262 (1), 17335148 (1)
    melanoma 26.5 2 11774264 (1), 12479262 (1)
    adenocarcinoma 24.7 1 12479262 (1)
    prostate cancer 24 7 15905609 (4), 12479262 (1)
    cancer 22.1 7 12479262 (2), 11774264 (1), 16061866 (1), 15905609 (1)
    metastasis 8.39 4 11774264 (2), 15905609 (1)


    Export disorders for XAGE1D 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 XAGE1D gene, integrated from 9 sources (see all 29):
    (articles sorted by number of sources associating them with XAGE1D)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. 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, 9 Egland K.A.... Pastan I. (2002)
    2. Identification of XAGE-1 isoforms: predominant expression of XAGE-1b in testis and tumors. (PubMed id 17335148)1, 2, 9 Sato S....Nakayama E. (2007)
    3. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (2005)
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    5. 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. (2002)
    6. XAGE-1, a new gene that is frequently expressed in Ewing's sarcoma. (PubMed id 10987281)1, 2 Liu X.F.... Pastan I. (2000)
    7. XAGE-1 expression in non-small cell lung cancer and antibody response in patients. (PubMed id 16061866)1, 9 Nakagawa K....Nakayama E. (2005)
    8. XAGE-1 mRNA expression in prostate cancer and antibody response in patients. (PubMed id 15905609)1, 9 Koizumi F....Nakayama E. (2005)
    9. Characterization of XAGE-1b, a short major transcript of cancer/testis-associated gene XAGE-1, induced in melanoma metastasis. (PubMed id 11774264)1, 9 Zendman A.J....van Muijen G.N. (2002)
    10. Charting the landscape of tandem BRCT domain-mediated protein interactions. (PubMed id 22990118)1 Woods N.T....Monteiro A.N. (2012)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
    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: 9503 HGNC: 21508 AceView: GAGED2.3 Ensembl:ENSG00000204376 euGenes: HUgn9503
    ECgene: XAGE1D H-InvDB: XAGE1D

    (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
    NameDescription
    PharmGKB entry for XAGE1D Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for XAGE1D gene:
    Search GeneIP for patents involving XAGE1D

    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, 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
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    About This Section

     
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    GeneCards Homepage - Last full update: 19 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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    VWF
    (GIFTS: 73)
    von Willebrand factor
    GIFtS Group
    The GeneCards human gene database gene index: 1 3 5 6 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 


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