Human Gene GAGE2C (uc004dno.4) Description and Page Index
  Description: Homo sapiens G antigen 2C (GAGE2C), mRNA.
RefSeq Summary (NM_001472): This gene belongs to a family of genes that are expressed in a variety of tumors but not in normal tissues, except for the testis. The sequences of the family members are highly related but differ by scattered nucleotide substitutions. The antigenic peptide YRPRPRRY, which is also encoded by several other family members, is recognized by autologous cytolytic T lymphocytes. [provided by RefSeq, Jul 2008]. ##RefSeq-Attributes-START## RefSeq Select criteria :: based on single protein-coding transcript ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chrX:49,197,563-49,214,430 Size: 16,868 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chrX:49,198,719-49,214,326 Size: 15,608 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:49,197,563-49,214,430)mRNA (may differ from genome)Protein (116 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaBioGPSCGAP
EnsemblEntrez GeneExonPrimerGeneCardsGeneNetworkH-INV
HGNCHPRDLynxMGIneXtProtOMIM
PubMedStanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: GAG2B_HUMAN
DESCRIPTION: RecName: Full=G antigen 2B/2C; Short=GAGE-2B; Short=GAGE-2C; AltName: Full=Cancer/testis antigen 4.2; Short=CT4.2; AltName: Full=G antigen 2C;
FUNCTION: Antigen, recognized on melanoma by autologous cytolytic T-lymphocytes.
TISSUE SPECIFICITY: Expressed in a variety of tumor tissues but not in normal tissues, except testis.
MISCELLANEOUS: This gene belongs to a family of genes organized in clustered repeats. They have a high degree of predicted sequence identity, but differ by scattered single nucleotide substitution. Their sequences contain either the antigenic peptide YYWPRPRRY or YRPRPRRY which is recognized by cytotoxic T-cells.
SIMILARITY: Belongs to the GAGE family.
CAUTION: The first GAGE nomenclature was based on identified mRNA sequences, but the high identity of the GAGE members made impossible to separate products of paralogous genes from polymorph products. PubMed:18179644 presented a new GAGE gene nomenclature based on the identified genes and their products.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 3.18 RPKM in Testis
Total median expression: 3.18 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -34.90116-0.301 Picture PostScript Text
3' UTR -21.30104-0.205 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR008625 - GAGE

Pfam Domains:
PF05831 - GAGE protein

ModBase Predicted Comparative 3D Structure on Q13066
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
      
      
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function

Biological Process:
GO:0008150 biological_process

Cellular Component:
GO:0005575 cellular_component


-  Descriptions from all associated GenBank mRNAs
  BC143620 - Homo sapiens G antigen 8, mRNA (cDNA clone MGC:177150 IMAGE:9052133), complete cds.
AF055473 - Homo sapiens GAGE-8 mRNA, complete cds.
BC024914 - Homo sapiens G antigen 5, mRNA (cDNA clone MGC:21275 IMAGE:4471969), complete cds.
U19145 - Human GAGE-4 protein mRNA, complete cds.
U19146 - Human GAGE-5 protein mRNA, complete cds.
BC171769 - Homo sapiens G antigen 4, mRNA (cDNA clone MGC:198484 IMAGE:9054423), complete cds.
AK310423 - Homo sapiens cDNA, FLJ17465.
BC018052 - Homo sapiens G antigen 2E, mRNA (cDNA clone MGC:26395 IMAGE:4812462), complete cds.
AB590984 - Synthetic construct DNA, clone: pFN21AE1110, Homo sapiens GAGE2E gene for G antigen 2E, without stop codon, in Flexi system.
BC156222 - Synthetic construct Homo sapiens clone IMAGE:100061614, MGC:190052 G antigen 8 (GAGE8) mRNA, encodes complete protein.
KJ893578 - Synthetic construct Homo sapiens clone ccsbBroadEn_02972 GAGE2E gene, encodes complete protein.
BC156971 - Synthetic construct Homo sapiens clone IMAGE:100063587, MGC:190826 G antigen 8 (GAGE8) mRNA, encodes complete protein.
DQ579008 - Homo sapiens piRNA piR-47120, complete sequence.
JD263734 - Sequence 244758 from Patent EP1572962.
JD502771 - Sequence 483795 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: C9K0W9, GAG2B_HUMAN, GAGE2, GAGE2B, NM_001472, NP_036328, Q13066, Q4V322
UCSC ID: uc004dno.4
RefSeq Accession: NM_001472
Protein: Q13066 (aka GAG2B_HUMAN)

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001472.2
exon count: 5CDS single in 3' UTR: no RNA size: 538
ORF size: 351CDS single in intron: no Alignment % ID: 99.81
txCdsPredict score: 902.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 4
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.