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XAGE1B X antigen family member 1B [ Homo sapiens (human) ]

Gene ID: 653067, updated on 5-Mar-2024

Summary

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Official Symbol
XAGE1Bprovided by HGNC
Official Full Name
X antigen family member 1Bprovided by HGNC
Primary source
HGNC:HGNC:25400
See related
Ensembl:ENSG00000204382 MIM:300289; AllianceGenome:HGNC:25400
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CTP9; XAGE1; CT12.1; GAGED2; XAGE-1; XAGE1C; XAGE1D; XAGE1E; CT12.1C; CT12.1D; CT12.1E; CT12.1b
Summary
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]
Annotation information
Note: There are two XAGE1 loci on the X chromosome. This location, previously annotated as XAGE1E, is now annotated as XAGE1B. [01 Dec 2017]
Expression
Restricted expression toward testis (RPKM 23.6) See more
Orthologs
all
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Genomic context

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See XAGE1B in Genome Data Viewer
Location:
Xp11.22
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (52512077..52517068, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (51783841..51788832, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (52541053..52546044, complement)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene X antigen family member 1A Neighboring gene RNA binding motif protein 22 pseudogene 7 Neighboring gene RNA binding motif protein 22 pseudogene 11 Neighboring gene X antigen family member 5-like

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Prolongation of overall survival in advanced lung adenocarcinoma patients with the XAGE1 (GAGED2a) antibody. Ohue Y, et al. Clin Cancer Res, 2014 Oct 1. PMID 25124687
  2. Lack of XAGE-1b and NY-ESO-1 in metastatic lymph nodes may predict the potential survival of stage III melanoma patients. Mori M, et al. J Dermatol, 2017 Jun. PMID 28105694
  3. Heteroclitic serological response in esophageal and prostate cancer patients after NY-ESO-1 protein vaccination. Kawada J, et al. Int J Cancer, 2012 Feb 1. PMID 21413013
  4. NLS-dependent and insufficient nuclear localization of XAGE-1 splice variants. Zhao R, et al. Oncol Rep, 2011 Apr. PMID 21305256
  5. [Association of XAGE-1 gene expression with clinical characteristics of lung cancer]. Lai Q, et al. Zhongguo Fei Ai Za Zhi, 2010 Aug. PMID 20704819, Free PMC Article

See all (36) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. In 22 melanoma patients with stage III lymph node metastasis, overall survival was significantly higher in the XAGE-1b and NY-ESO-1 double-negative group than in the other groups.
    Title: Lack of XAGE-1b and NY-ESO-1 in metastatic lymph nodes may predict the potential survival of stage III melanoma patients.
  2. We investigated tumor-infiltrating CD4 and CD8 T cells and the expression of PD-L1, Galectin-9, and XAGE1 in stage I to IIIA lung adenocarcinomas using a tissue microarray to deduce their contribution to overall survival, and our data showed that PD-L1 expression was a positive indicator, whereas Galectin-9 and XAGE1 expression was negative.
    Title: Survival of Lung Adenocarcinoma Patients Predicted from Expression of PD-L1, Galectin-9, and XAGE1 (GAGED2a) on Tumor Cells and Tumor-Infiltrating T Cells.
  3. The findings suggest that production of the XAGE1 (GAGED2a) antibody predicts good prognosis for patients with lung adenocarcinoma as an immune biomarker
    Title: Prolongation of overall survival in advanced lung adenocarcinoma patients with the XAGE1 (GAGED2a) antibody.
  4. Activation of human cancer/testis antigen gene, XAGE-1, in tumor cells is correlated with CpG island hypomethylation.
    Title: Activation of human cancer/testis antigen gene, XAGE-1, in tumor cells is correlated with CpG island hypomethylation.
  5. XAGE-1 gene is highly expressed in lung adenocarcinoma.
    Title: [Association of XAGE-1 gene expression with clinical characteristics of lung cancer].
  6. XAGE-1b gene is highly expressed in lung adenocarcinoma.
    Title: [Association of XAGE-1b gene expression with clinical characteristics of non-small cell lung cancer].
  7. transcription of the XAGE-1 gene is initiated from two distinct start sites, resulting in two overlapping transcripts, XAGE-1a and XAGE-1b; XAGE-1 is expressed in a diverse range of cancers
    Title: Characterization of overlapping XAGE-1 transcripts encoding a cancer testis antigen expressed in lung, breast, and other types of cancers.
  8. XAGE-1b is a promising target molecule for a cancer vaccine against lung cancer.
    Title: Identification of XAGE-1 isoforms: predominant expression of XAGE-1b in testis and tumors.
  9. XAGE-1b is highly and strongly expressed in lung adenocarcinoma and immunogenic in patients
    Title: XAGE-1 expression in non-small cell lung cancer and antibody response in patients.
  10. XAGE-1 expression in normal and cancerous tissues is regulated by methylation of the CpG island in the gene promoter
    Title: Activation of human cancer/testis antigen gene, XAGE-1, in tumor cells is correlated with CpG island hypomethylation.
Submit: New GeneRIF Correction See all GeneRIFs (11)

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Clone Names

  • MGC193193

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 

General protein information

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Preferred Names
X antigen family member 1
Names
G antigen family D member 2
X antigen family member 1E
X antigen family, member 1C
X antigen family, member 1D
cancer/testis antigen 12.1
cancer/testis antigen family 12, member 1b
cancer/testis antigen family 12, member 1c
cancer/testis antigen family 12, member 1d
cancer/testis antigen family 12, member 1e
cancer/testis associated protein
protein XAGE-1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_029951.2 RefSeqGene

    Range
    5126..10112
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001097604.3 → NP_001091073.2  X antigen family member 1 isoform a

    See identical proteins and their annotated locations for NP_001091073.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (a, also known as XAGE-1b) encodes the longer isoform (a, also known as isoform XAGE-1b).
    Source sequence(s)
    BX510359
    Consensus CDS
    CCDS48126.2
    UniProtKB/Swiss-Prot
    A6NJ94, Q5JPN8, Q5JPP0, Q5JPP3, Q8WWG5, Q8WWG6, Q969J6, Q9HD64
    Related
    ENSP00000364766.1, ENST00000375616.6
    Conserved Domains (1) summary
    pfam05831
    Location:55 → 75
    GAGE; GAGE protein

  2. NM_001097605.2 → NP_001091074.1  X antigen family member 1 isoform d

    See identical proteins and their annotated locations for NP_001091074.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (d, also known as XAGE-1d) starts at a downstream transcription start site, and uses an alternate splice site in an internal exon that causes a frameshift in the 3' coding region, compared to variant a. The encoded isoform (d) has a distinct and shorter C-terminus, compared to isoform a.
    Source sequence(s)
    BX510359
    Consensus CDS
    CCDS48128.1
    UniProtKB/Swiss-Prot
    Q9HD64
    Related
    ENSP00000364763.3, ENST00000375613.7

RNA

  1. NR_033257.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (c, also known as XAGE-1c) differs in the 5'-most exon, compared to variant a. This variant is represented as non-coding due to the presence of two upstream ORFs that inhibit translation of the primary ORF, as indicated by experimental evidence in PMID:17335148.
    Source sequence(s)
    BX510359
    Related
    ENST00000375612.8

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    52512077..52517068 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017029746.2 → XP_016885235.1  X antigen family member 1 isoform X1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    51783841..51788832 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054327618.1 → XP_054183593.1  X antigen family member 1 isoform X2

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001097597.2: Suppressed sequence

    Description
    NM_001097597.2: This RefSeq was permanently suppressed because it is a redundant RefSeq for this XAGE1 family member.

  2. NM_001097598.2: Suppressed sequence

    Description
    NM_001097598.2: This RefSeq was permanently suppressed because it is a redundant RefSeq for this XAGE1 family member.

  3. NM_001097602.1: Suppressed sequence

    Description
    NM_001097602.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.

  4. NM_001097603.1: Suppressed sequence

    Description
    NM_001097603.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.

  5. NM_020411.2: Suppressed sequence

    Description
    NM_020411.2: This RefSeq was permanently suppressed because it is a redundant RefSeq for this XAGE1 family member.

  6. NM_133430.2: Suppressed sequence

    Description
    NM_133430.2: This RefSeq was permanently suppressed because it is a redundant RefSeq for this XAGE1 family member.

  7. NM_133431.3: Suppressed sequence

    Description
    NM_133431.3: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9HD64.3 GenPept UniProtKB/Swiss-Prot:Q9HD64

Gene LinkOut

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