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XAGE1A X antigen family member 1A [ Homo sapiens (human) ]

Gene ID: 653220, updated on 13-May-2022

Summary

Official Symbol
XAGE1Aprovided by HGNC
Official Full Name
X antigen family member 1Aprovided by HGNC
Primary source
HGNC:HGNC:4111
See related
Ensembl:ENSG00000204379 MIM:300742; AllianceGenome:HGNC:4111
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; XAGE1B; CT12.1A; 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 XAGE1B, is now annotated as XAGE1A. [01 Dec 2017]
Expression
Restricted expression toward testis (RPKM 23.8) See more
Orthologs
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Genomic context

See XAGE1A in Genome Data Viewer
Location:
Xp11.22
Exon count:
4
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (52495808..52500812)
110 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (51767583..51772587)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (52238950..52243954)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene X antigen family member 5-like Neighboring gene RNA binding motif protein 22 pseudogene 6 Neighboring gene RNA binding motif protein 22 pseudogene 7 Neighboring gene X antigen family member 1B

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General protein information

Preferred Names
X antigen family member 1
Names
G antigen family D member 2
G antigen, family D, 2
X antigen family member 1B
cancer/testis antigen 12.1
cancer/testis antigen family 12, member 1a
cancer/testis antigen family 12, member 1b
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.

mRNA and Protein(s)

  1. NM_001097594.3NP_001091063.2  X antigen family member 1 isoform a

    See identical proteins and their annotated locations for NP_001091063.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (a, also known as XAGE-1a) encodes the longer isoform (a, also known as isoform XAGE-1b). This variant also includes a major downstream transcription start site, which results in the variant referred to as XAGE-1b in the literature. Both XAGE-1a and XAGE-1b encode the same isoform. This RefSeq contains an in-frame start site 65 codons upstream from the currently annotated site but is not being annotated as a start site since it is in a weak Kozak sequence context and experimental evidence indicates that the downstream AUG is used. (PMID: 12479262 and PMID: 17335148)
    Source sequence(s)
    BX510359
    Consensus CDS
    CCDS75982.1
    UniProtKB/Swiss-Prot
    Q9HD64
    Related
    ENSP00000364752.1, ENST00000375602.2
    Conserved Domains (1) summary
    pfam05831
    Location:5575
    GAGE; GAGE protein
  2. NM_001097596.3NP_001091065.1  X antigen family member 1 isoform d

    See identical proteins and their annotated locations for NP_001091065.1

    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
    CCDS75983.1
    UniProtKB/Swiss-Prot
    Q9HD64
    Related
    ENSP00000364750.1, ENST00000375600.5

RNA

  1. NR_033254.1 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
    ENST00000375595.8

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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
    52495808..52500812
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017029748.2XP_016885237.1  X antigen family member 1 isoform X1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    51767583..51772587
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001097591.1: Suppressed sequence

    Description
    NM_001097591.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
  2. NM_001097592.2: Suppressed sequence

    Description
    NM_001097592.2: This RefSeq was permanently suppressed because it is a redundant RefSeq for this XAGE1 family member.
  3. NM_001097593.2: Suppressed sequence

    Description
    NM_001097593.2: This RefSeq was permanently suppressed because it is a redundant RefSeq for this XAGE1 family member.
  4. NM_001097595.1: Suppressed sequence

    Description
    NM_001097595.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.