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XAGE1D Gene

protein-coding   GIFtS: 38

GC0XM052545
X antigen family, member 1D
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Products    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases & Descriptions
X antigen family, member 1D1 2     cancer/testis antigen family 12, member 1d2
Protein XAGE-12 3     XAGE1A2
Cancer/testis antigen 12.12 3     CT12.1D2
CT12.12 3     cancer/testis associated protein2
GAGED23 5     XAGE1C2
XAGE13 5     XAGE1E2
CT12.1d1     XAGE1B2
G antigen family D member 22     OTTHUMP000000233152
OTTHUMP000002183072     CTP92

External Ids:    HGNC: 215081   Entrez Gene: 95032   Ensembl: ENSG000002043767   UniProtKB: Q9HD643   

Export aliases for XAGE1D gene to outside databases

Previous GC identifer: GC0XU900701


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki,
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)

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 60), Regulatory elements and Epigenetics data according to Qiagen and/or SABiosciences)
About This Section

Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for XAGE1D
         Other transcription factors

   Search SABiosciences Chromatin IP Primers for XAGE1D

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays 


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 gene densities for 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

0 alternative location:
RefSeq DNA sequence:
NC_000023.10  NT_011630.14  

(According to 1UniProtKB, neXtProt, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Millipore, Sigma-Aldrich, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, and/or ProSpec,
Biochemical Assays by Millipore, Sigma-Aldrich, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Dec 2010 and Entrez Gene, Antibodies by Millipore, Sigma-Aldrich, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, and/or Epitomics)
About This Section

UniProtKB/Swiss-Prot: GAGD2_HUMAN, Q9HD64 (See protein sequence)
Recommended Name: G antigen family D member 2  
Size: 160 amino acids; 17751 Da
Sequence caution: Sequence=AAG01401.1; Type=Erroneous initiation;
Secondary accessions: A6NJ94 Q5JPN8 Q5JPP0 Q5JPP3 Q8WWG5 Q8WWG6 Q969J6
Alternative splicing: 3 isoforms:  Q9HD64-3   Q9HD64-2   Q9HD64-4   

Explore the universe of human proteins at neXtProt for XAGE1D: NX_Q9HD64 

REFSEQ proteins (2 alternative transcripts): 
NP_065144.2  NP_597673.1  


ENSEMBL proteins: 
ENSP00000389220 ENSP00000364097 ENSP00000379755 ENSP00000364728 


Human Recombinant Proteins 
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Assays for XAGE1D: 
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Uscn ELISAs and CLIAs for XAGE1D 


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

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 UniProtKB, IUBMB,and/or Genatlas, Animal models from MGI Dec 24 2010,
shRNA from OriGene, Sigma-Aldrich, RNAi from Millipore, siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich, microRNA from Sigma-Aldrich, Qiagen, SABiosciences, Clones from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, Cell Lines from GenScript, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene.)
About This Section

Inhib.
RNA:
    
Browse for Gene Knock-down Tools from Millipore
Browse Nano Scale siRNA at Sigma-Aldrich
Sigma-Aldrich siRNA for XAGE1D
Sigma-Aldrich shRNA for XAGE1D
OriGene 29mer shRNA kits in GFP-retroviral vector (see all 5): XAGE1D
OriGene shRNA RFP (see all 5): XAGE1D
OriGene basic RS shRNA (see all 5): XAGE1D
OriGene siRNA (see all 5): XAGE1D
QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of XAGE1D 
miRNA:Browse microRNA Mimics at Sigma-Aldrich
Browse microRNA target validation systems at Sigma-Aldrich 
QIAGEN Custom miScript Target Protector blocks miRNA-binding site of XAGE1D 
Search SABiosciences for Assays for microRNAs that regulate XAGE1D

Gene
Editing:
Browse CompoZr Knockout ZFN at Sigma-Aldrich 

Clones:Browse Clones for the Expression of Recombinant Proteins Available from Millipore
Browse iPSC Reprogramming Factors at Sigma-Aldrich
OriGene GFP tagged cDNA clones in CMV expression vector (see all 3): XAGE1D
OriGene Myc/DDK tagged cDNA clones in CMV expression vector (see all 3): XAGE1D
OriGene untagged cDNA clones in CMV expression vector (see all 4): XAGE1D
Browse 3'-UTR reporter clones for miRNA target validation 
Browse MicroRNA Expression Plasmids 
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Cell
Lines:
  
GenScript Custom overexpressing Cell Line Services for XAGE1D 


(Pathways according to Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB, Sets of similar genes according to GeneDecks, PCR Arrays from SABiosciences, Proteins Network according to SABiosciences, Sigma-Aldrich, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene).
About This Section

    SABiosciences Custom Pathway-Focused PCR Arrays for XAGE1D 

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for XAGE1D

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section
Browse Small Molecules at Sigma-Aldrich
Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for XAGE1D


(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 228 Homo sapiens; Dec 8 2010) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Millipore,
siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene, microRNA from Sigma-Aldrich, Qiagen, SABiosciences,
Tagged/untagged cDNA clones from OriGene, Sigma-Aldrich, GenScript, Primers from OriGene and/or SABiosciences)
About This Section

Inhib.
RNA:
     
Browse for Gene Knock-down Tools from Millipore
Browse Nano Scale siRNA at Sigma-Aldrich
Sigma-Aldrich siRNA for XAGE1D
Sigma-Aldrich shRNA for XAGE1D
OriGene 29mer shRNA kits in GFP-retroviral vector (see all 5): XAGE1D
OriGene shRNA RFP (see all 5): XAGE1D
OriGene basic RS shRNA (see all 5): XAGE1D
OriGene siRNA (see all 5): XAGE1D
QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of XAGE1D 
miRNA: Browse microRNA Mimics at Sigma-Aldrich
Browse microRNA target validation systems at Sigma-Aldrich 
QIAGEN Custom miScript Target Protector blocks miRNA-binding site of XAGE1D 
Search SABiosciences for Assays for microRNAs that regulate XAGE1D
Clones: Browse FLAG tag genes at Sigma-Aldrich
OriGene GFP tagged cDNA clones in CMV expression vector (see all 3): XAGE1D
OriGene Myc/DDK tagged cDNA clones in CMV expression vector (see all 3): XAGE1D
OriGene untagged cDNA clones in CMV expression vector (see all 4): XAGE1D
Browse 3'-UTR reporter clones for miRNA target validation 
Browse OriGene MicroRNA Expression Plasmids 
GenScript Custom cDNA clone Services for XAGE1D 
Primers: OriGene genome-wide validated SYBR primer pairs: XAGE1D
Browse OriGene validated miRNA SYBR primer pairs 
SABiosciences RT2 qPCR Primer Assay for XAGE1D: PPH65878A

REFSEQ mRNAs for XAGE1D gene (2 alternative transcripts): 

NM_020411.2  NM_133430.2  

Additional cDNA sequence: 

AJ290447.1 AJ318879.1 

13 DOTS entries:

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

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

NM_133430 AA620697 BE881023 NM_020411 AF251237 BC009538 AJ318878 NM_133431 
AA948244 BX101350 AJ318879 AW386187 AI631681 AJ290447 AI954712 BU564534 
BU182421 AA758618 BE875341 BT007099 AA483082 BI460303 AA483341 BG216048 

Unigene Clusters for XAGE1D:

X antigen family, member 1D
Hs.112208  [show with all ESTs], Hs.584511
Unigene Representative Sequences: BG191783, NM_133430


GeneLoc Exon Structure

6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000438079 ENST00000375572(uc004dqq.2) ENST00000478767 ENST00000374959
ENST00000396497(uc004dqr.2 uc004dqs.2) ENST00000375578

(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 228 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Primers from OriGene and/or SABiosciences )
About This Section

XAGE1D expression in normal and diseased human tissues

1  / 2

3 probe-sets matching XAGE1D gene

Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
56998_at2 U95-B 5 0.75 0.20 1.00 1.00 -- -- -- -- --
220057_at2 U133-A 5 0.64 0.20 -- -- -- -- -- -- --
220057_at2 U133Plus2 5 0.64 0.20 -- -- -- -- -- -- --
About this table

XAGE1D for expression           About GeneDecksing

Data from Genenote  (Publications) and GNF BioGPS
    About these images
XAGE1D gene expression
XAGE1D gene electronic northern expression
XAGE1D gene sage expression
About these images

CGAP SAGE TAG: GAAGGTGATC

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

Primers: OriGene genome-wide validated SYBR primer pairs: XAGE1D
Browse OriGene validated miRNA SYBR primer pairs 
SABiosciences RT2 qPCR Primer Assay for XAGE1D: PPH65878A
    SABiosciences Custom PCR Arrays for XAGE1D 


(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Dec 24 2010, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section

Orthologs for XAGE1D gene from 1 species
Organism Gene Locus Description Human
Similarity
NCBI accessions
chimpanzee
(Pan troglodytes)
XAGE1A1   -- X antigen family, member 1A 98.75(n)
96.87(a)
741118  XM_001143525.1  XP_001143525.1 
About this table        Species with no ortholog for XAGE1D

ENSEMBL Gene Tree for XAGE1D (if available)

(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section
Paralogs for XAGE1D gene
XAGE1E1 2  XAGE1B2  XAGE1A2  XAGE1C2  

XAGE1D for paralogs           About GeneDecksing



(SNPs according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Resequencing Primers from Qiagen)
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
Search QIAGEN SeqTarget long-range PCR primers for resequencing for XAGE1D 

(in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, LSDB, HGMD, GAD, HuGE Navigator, and/or TGDB.)
About This Section

XAGE1D for disorders           About GeneDecksing

OMIM: 300289

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

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)
About this table


Export disorders and mutations for XAGE1D gene to outside databases

(Possibly Related Articles in Doctor's Guide)
About This Section
  --

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6UniProtKB/TrEMBL, and/or 7Novoseek)
About This Section

10/25 PubMed articles for XAGE1D gene, integrated from 7 sources (see all 25):
(articles sorted by number of sources associating them with XAGE1D)
  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, 7 Egland K.A.... Pastan I. (2002)
  2. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (2005)
  3. 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)
  4. 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)
  5. XAGE-1, a new gene that is frequently expressed in Ewing's sarcoma. (PubMed id 10987281)1, 2 Liu X.F.... Pastan I. (2000)
  6. XAGE-1 expression in non-small cell lung cancer and antibody response in patients. (PubMed id 16061866)1, 7 Nakagawa K....Nakayama E. (2005)
  7. XAGE-1 mRNA expression in prostate cancer and antibody response in patients. (PubMed id 15905609)1, 7 Koizumi F....Nakayama E. (2005)
  8. Characterization of XAGE-1b, a short major transcript of cancer/testis-associated gene XAGE-1, induced in melanoma metastasis. (PubMed id 11774264)1, 7 Zendman A.J....van Muijen G.N. (2002)
  9. Identification of XAGE-1 isoforms: predominant expression of XAGE-1b in testis and tumors. (PubMed id 17335148)1, 7 Sato S....Nakayama E. (2007)
  10. [Association of XAGE-1 gene expression with clinical characteristics of lung cancer]. (PubMed id 20704819)1 Lai Q....Sun Y. (2010 Aug 20)

(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 ATLAS, HORDE, IMGT, MTDB, 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 XenneX, 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 by Millipore, Sigma-Aldrich, R&D Systems, Qiagen, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Epitomics, ProSpec, Uscn,
Clones available from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, PCR Arrays from SABiosciences, Drugs and/or compounds by Sigma-Aldrich, Tocris Bioscience, and/or Enzo Life Sciences)
About This Section

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 QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays
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