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TRA2A transformer 2 alpha homolog [ Homo sapiens (human) ]

Gene ID: 29896, updated on 10-Oct-2019

Summary

Official Symbol
TRA2Aprovided by HGNC
Official Full Name
transformer 2 alpha homologprovided by HGNC
Primary source
HGNC:HGNC:16645
See related
Ensembl:ENSG00000164548 MIM:602718
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
AWMS1; HSU53209
Summary
This gene is a member of the transformer 2 homolog family and encodes a protein with several RRM (RNA recognition motif) domains. This phosphorylated nuclear protein binds to specific RNA sequences and plays a role in the regulation of pre-mRNA splicing. Alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Sep 2013]
Expression
Ubiquitous expression in bone marrow (RPKM 46.2), endometrium (RPKM 25.7) and 25 other tissues See more
Orthologs

Genomic context

See TRA2A in Genome Data Viewer
Location:
7p15.3
Exon count:
10
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 7 NC_000007.14 (23504780..23532041, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (23544399..23571656, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene chromosome 5 open reading frame 13 pseudogene Neighboring gene ribosomal protein S2 pseudogene 32 Neighboring gene ATP binding cassette subfamily E member 1 pseudogene Neighboring gene CDC like kinase 2, pseudogene 1

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?

HIV-1 interactions

Replication interactions

Interaction Pubs
HIV-1 RNA splice site usage is altered by the overexpression of TRA2A (in 293T cells) and different isoforms of TRA2A exhibit different altered splice site usage patterns PubMed

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 Env protein expression is inhibited by the overexpression of TRA2A (in 293T cells), both full length isoform and truncated N-terminal isoform PubMed
Pr55(Gag) gag HIV-1 Gag protein expression is inhibited by the overexpression of TRA2A (in 293T cells), both full length isoform and truncated N-terminal isoform PubMed
Vpr vpr The splicing factors TRA2-alpha and TRA2-beta bind to the exonic splicing enhancer ESEvpr for the activation of exon 3 inclusion, vpr mRNA splicing, and Vpr protein expression PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Spliceosome, organism-specific biosystem (from KEGG)
    Spliceosome, organism-specific biosystemAfter transcription, eukaryotic mRNA precursors contain protein-coding exons and noncoding introns. In the following splicing, introns are excised and exons are joined by a macromolecular complex, th...
  • Spliceosome, conserved biosystem (from KEGG)
    Spliceosome, conserved biosystemAfter transcription, eukaryotic mRNA precursors contain protein-coding exons and noncoding introns. In the following splicing, introns are excised and exons are joined by a macromolecular complex, th...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
mRNA splicing, via spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
nucleolus IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
ribonucleoprotein complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
spliceosomal complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
transformer-2 protein homolog alpha
Names
TRA-2 alpha
TRA2-alpha
Tra2alpha
htra-2 alpha
putative MAPK activating protein PM24
transformer-2 alpha
transformer-2 protein homolog A

NCBI Reference Sequences (RefSeq)

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_001282757.1NP_001269686.1  transformer-2 protein homolog alpha isoform 2

    See identical proteins and their annotated locations for NP_001269686.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains an additional exon in the 5' region that results in translation initiation from an in-frame downstream start codon compared to variant 1. The resulting isoform (2) has a shorter N-terminus compared to isoform 1. Variants 2 and 3 encode the same isoform.
    Source sequence(s)
    AB097048, AC023105, AK300565, BG722500, BP376263, U53209
    Consensus CDS
    CCDS64609.1
    UniProtKB/Swiss-Prot
    Q13595
    UniProtKB/TrEMBL
    Q549U1
    Related
    ENSP00000441116.1, ENST00000538367.5
    Conserved Domains (1) summary
    cl17169
    Location:997
    RRM_SF; RNA recognition motif (RRM) superfamily
  2. NM_001282758.1NP_001269687.1  transformer-2 protein homolog alpha isoform 2

    See identical proteins and their annotated locations for NP_001269687.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) contains an additional exon in the 5' region that results in translation initiation from an in-frame downstream start codon compared to variant 1. The resulting isoform (2) has a shorter N-terminus compared to isoform 1. Variants 2 and 3 encode the same isoform.
    Source sequence(s)
    AB097048, AC023105, AK300741, BG722500, BP376263, U53209
    Consensus CDS
    CCDS64609.1
    UniProtKB/Swiss-Prot
    Q13595
    UniProtKB/TrEMBL
    Q549U1
    Related
    ENSP00000480822.1, ENST00000621813.4
    Conserved Domains (1) summary
    cl17169
    Location:997
    RRM_SF; RNA recognition motif (RRM) superfamily
  3. NM_001282759.1NP_001269688.1  transformer-2 protein homolog alpha isoform 3

    See identical proteins and their annotated locations for NP_001269688.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) contains two additional exons in the 5' region and uses an alternate in-frame acceptor splice site in the 3' coding region compared to variant 1. The former difference results in translation initiation from an in-frame downstream start codon, and an isoform (3) with a shorter N-terminus compared to isoform 1.
    Source sequence(s)
    AB097048, AC023105, AK298815, AK300741, BG722500, BP376263
    Consensus CDS
    CCDS75569.1
    UniProtKB/Swiss-Prot
    Q13595
    UniProtKB/TrEMBL
    Q549U1
    Related
    ENSP00000376290.4, ENST00000392502.8
    Conserved Domains (1) summary
    cl17169
    Location:997
    RRM_SF; RNA recognition motif (RRM) superfamily
  4. NM_001362759.2NP_001349688.1  transformer-2 protein homolog alpha isoform 4

    Status: REVIEWED

    Source sequence(s)
    AB097048, AK300565, CN428527, HY021807, U53209
    Conserved Domains (1) summary
    cl17169
    Location:112134
    RRM_SF; RNA recognition motif (RRM) superfamily
  5. NM_001362760.2NP_001349689.1  transformer-2 protein homolog alpha isoform 2

    Status: REVIEWED

    Source sequence(s)
    AB097048, AK300565, AK311687, BG722500, U53209
    Consensus CDS
    CCDS64609.1
    Conserved Domains (1) summary
    cl17169
    Location:997
    RRM_SF; RNA recognition motif (RRM) superfamily
  6. NM_001362761.2NP_001349690.1  transformer-2 protein homolog alpha isoform 2

    Status: REVIEWED

    Source sequence(s)
    AB097048, AK300565, BP376263, DA361083, U53209
    Consensus CDS
    CCDS64609.1
    Conserved Domains (1) summary
    cl17169
    Location:997
    RRM_SF; RNA recognition motif (RRM) superfamily
  7. NM_013293.5NP_037425.1  transformer-2 protein homolog alpha isoform 1

    See identical proteins and their annotated locations for NP_037425.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AB097048, BP376263, U53209
    Consensus CDS
    CCDS5383.1
    UniProtKB/Swiss-Prot
    Q13595
    UniProtKB/TrEMBL
    Q549U1
    Related
    ENSP00000297071.4, ENST00000297071.9
    Conserved Domains (1) summary
    cd12363
    Location:120197
    RRM_TRA2; RNA recognition motif in transformer-2 protein homolog TRA2-alpha, TRA2-beta and similar proteins

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20190905

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p13 Primary Assembly

    Range
    23504780..23532041 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017012090.1XP_016867579.1  transformer-2 protein homolog alpha isoform X2

    UniProtKB/Swiss-Prot
    Q13595
    Conserved Domains (1) summary
    cl17169
    Location:997
    RRM_SF; RNA recognition motif (RRM) superfamily
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