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XAGE3 Gene

protein-coding   GIFtS: 40
GCID: GC0XM052908

X Antigen Family, Member 3

(Previous names: placenta-specific 6; G antigen, family D, 4)
(Previous symbols: PLAC6, GAGED4)
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(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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Aliases
X Antigen Family, Member 31 2     Placenta-Specific 6; G Antigen, Family D, 41
PLAC61 2 3 5     CT12.3a2
GAGED41 2 3     CT12.3b2
Cancer/Testis Antigen 12.32 3     Cancer/Testis Antigen Family 12, Member 3a2
G Antigen Family D Member 42 3     Cancer/Testis Antigen Family 12, Member 3b2
Placenta-Specific Gene 6 Protein2 3     G Antigen, Family D, 42
CT12.32 3     Placenta-Specific 62
XAGE-32 3     pp90122
Cancer/Testis Antigen Family 121     Protein XAGE-32
Member 3a1     X Antigen Family Member 32
Member 3b1     

External Ids:    HGNC: 146181   Entrez Gene: 1706262   Ensembl: ENSG000001714027   OMIM: 3007405   UniProtKB: Q8WTP93   

Export aliases for XAGE3 gene to outside databases

Previous GC identifer: GC0XM052775


(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 XAGE3 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 expressed in placenta and fetal
liver/spleen, and may function in inhibiting cancer cell growth. The protein encoded by this gene 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 generates
2 transcript variants differing in the 5' UTR. (provided by RefSeq, Jul 2008)

GeneCards Summary for XAGE3 Gene:
XAGE3 (X antigen family, member 3) is a protein-coding gene. An important paralog of this gene is GAGE2D.




(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_000023.10  NC_018934.2  NT_011630.15  
Regulatory elements:
   Search for regulatory transcription factor binding sites for XAGE3
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidXAGE3 promoter sequence
   Search Chromatin IP Primers for XAGE3

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat XAGE3


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

XAGE3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
XAGE3 gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XM052908:  view genomic region     (about GC identifiers)

Start:
52,891,557 bp from pter      End:
52,897,119 bp from pter
Size:
5,563 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: XAGE3_HUMAN, Q8WTP9 (See protein sequence)
Recommended Name: X antigen family member 3  
Size: 111 amino acids; 12302 Da
Secondary accessions: Q5JS82 Q8WYS9

Explore the universe of human proteins at neXtProt for XAGE3: NX_Q8WTP9

Explore proteomics data for XAGE3 at MOPED


See XAGE3 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins (2 alternative transcripts): 
NP_570132.1  NP_573440.1  

ENSEMBL proteins: 
 ENSP00000364640   ENSP00000303061  

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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 Q8WTP9

ProtoNet protein and cluster: Q8WTP9

1 Blocks protein domain: IPB008625 GAGE

UniProtKB/Swiss-Prot: XAGE3_HUMAN, Q8WTP9
Similarity: Belongs to the GAGE family


Find genes that share domains with XAGE3           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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     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005515protein binding IPI--
     
Find genes that share ontologies with XAGE3           About GenesLikeMe


Phenotypes:
     2 GenomeRNAi human phenotypes for XAGE3:
 Increased gamma-H2AX phosphory  Synthetic lethal with Ras 

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
mitochondrion3
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 XAGE3
Interactions:

    Search GeneGlobe Interaction Network for XAGE3

1 Interacting protein for XAGE3 (Q8WTP91) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
HTTP428581EBI-6448284,EBI-466029
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 XAGE3



(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 XAGE3 gene (2 alternative transcripts): 
NM_130776.1  NM_133179.2  

Unigene Cluster for XAGE3:

X antigen family, member 3
Hs.43879  [show with all ESTs]
Unigene Representative Sequence: CF993800
2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000375491(uc004dre.3) ENST00000346279(uc004drf.3)
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Additional mRNA sequence: 

AF318372.1 AJ318881.1 BC062680.1 

3 DOTS entries:

DT.101970658  DT.97825141  DT.410605 

24 AceView cDNA sequences:

AJ318881 NM_130776 N32547 N41436 BC062680 N41892 AI189067 NM_133179 
C18417 CF993800 BG354572 D59091 AF318372 BX283272 AI742551 N40147 
T84951 BG436468 N41723 CB994958 CB992682 CB961487 BG436305 BG435916 

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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XAGE3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
XAGE3 Expression
About this image

XAGE3 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

XAGE3 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.43879
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Assay Products:
 

 
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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 XAGE3 gene from 1 species (see representative species )    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
chimpanzee
(Pan troglodytes)
Mammalia XAGE31 X antigen family, member 3 99.1(n)
99.1(a)
  741714  XM_001144042.1  XP_001144042.1 


ENSEMBL Gene Tree for XAGE3 (if available)
TreeFam Gene Tree for XAGE3 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for XAGE3 gene
GAGE2D2  GAGE12H2  GAGE102  GAGE12I2  XAGE52  XAGE2B2  GAGE12C2  GAGE12E2  
GAGE12D2  GAGE2E2  GAGE12  GAGE2C2  GAGE12F2  GAGE132  PAGE12  XAGE22  
GAGE12G2  GAGE2B2  GAGE2A2  GAGE12J2  
Selected SIMAP similar genes for XAGE3 using alignment to 2 protein entries:     XAGE3_HUMAN (see all proteins) (see all similar genes):
XAGE2    XAGE2B    XAGE1A    XAGE1B    XAGE1C    XAGE1D
XAGE1E    XAGE5    XAGE-4    PAGE3    GAGE2D    GAGE8
GAGE2A    GAGE2B    GAGE2C    GAGE2E    GAGE1    GAGE10

Find genes that share paralogs with XAGE3           About GenesLikeMe


2 Pseudogenes.org Pseudogenes for XAGE3
PGOHUM00000245809 PGOHUM00000241340


(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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Selected SNPs for XAGE3 (see all 172)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr X posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1123097771,2
C--52891142(+) TGTGTG/ATACCA 2 -- ds50011Minor allele frequency- A:0.50WA 2
rs1454966691,2
--52891144(+) TGTGTA/GCCAGT 2 -- ds50010--------
rs1890966071,2
--52891154(+) TGTAAC/TCAGAA 2 -- ds50010--------
rs1139292551,2
C--52891162(+) GAATAC/GAAAAT 2 -- ds50010--------
rs361787081,2
C--52891170(+) AATTTC/TAAAAA 2 -- ds50010--------
rs3704494511,2
C--52891192(+) CCTTT-/CTTTTT 2 -- ds50010--------
rs1444972941,2
C--52891213(+) TCTCA-/CTCTGTC 2 -- ds50010--------
rs1120026581,2
C--52891259(+) TACCTG/ACATCC 2 -- ds50011Minor allele frequency- A:0.50WA 2
rs1815578731,2
--52891304(+) AGCCTC/TAGGAG 2 -- ds50010--------
rs732064851,2
C--52891331(+) TACATA/GTATAC 2 -- ds50010--------

HapMap Linkage Disequilibrium report for XAGE3 (52891557 - 52897119 bp)

Structural Variations
     Database of Genomic Variants (DGV) 3 variations for XAGE3:    About this table    
Variant IDTypeSubtypePubMed ID
esv2740175CNV Deletion23290073
nsv435891CNV Deletion17901297
esv2740170CNV Deletion23290073

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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: 300740    OMIM disorders: --


Find genes that share disorders with XAGE3           About GenesLikeMe


Export disorders for XAGE3 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 XAGE3 gene integrated from 10 sources:
(articles sorted by number of sources associating them with XAGE3)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (Nature 2005)
  2. 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. (Genome Res. 2004)
  3. Large-scale cDNA transfection screening for genes related to cancer development and progression. (PubMed id 15498874)1, 2 Wan D....Gu J. (Proc. Natl. Acad. Sci. U.S.A. 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. (Int. J. Cancer 2002)
  5. Development and application of a DNA microarray-based yeast two-hybrid system. (PubMed id 23275563)1 Suter B....Wanker E.E. (Nucleic Acids Res. 2013)
  6. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (Genomics 2007)
  7. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
  8. Novel genes in the PAGE and GAGE family of tumor antigens found by homology walking in the dbEST database. (PubMed id 10197611)1 Brinkmann U.... Pastan I. (Cancer Res. 1999)

(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: 170626 HGNC: 14618 AceView: GAGED4 Ensembl:ENSG00000171402 euGenes: HUgn170626
ECgene: XAGE3 H-InvDB: XAGE3

(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 XAGE3 Pharmacogenomics, SNPs, Pathways
ATLAS Chromosomes in Cancer entry for XAGE3 Genetics and Cytogenetics in Oncology and Haematology

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for XAGE3 gene:
Search GeneIP for patents involving XAGE3

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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GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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