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Tra2b transformer 2 beta [ Mus musculus (house mouse) ]

Gene ID: 20462, updated on 16-Apr-2024

Summary

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Official Symbol
Tra2bprovided by MGI
Official Full Name
transformer 2 betaprovided by MGI
Primary source
MGI:MGI:106016
See related
Ensembl:ENSMUSG00000022858 AllianceGenome:MGI:106016
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
SIG-41; Sfrs10; Silg41; TRA2beta; D16Ertd266e; 5730405G21Rik
Summary
Enables poly-purine tract binding activity and pre-mRNA binding activity. Acts upstream of or within cerebral cortex regionalization; embryonic brain development; and regulation of mRNA splicing, via spliceosome. Located in nuclear inner membrane. Is expressed in central nervous system; extraembryonic ectoderm; olfactory epithelium; retina; and thymus. Orthologous to human TRA2B (transformer 2 beta homolog). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 57.4), CNS E14 (RPKM 44.4) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Tra2b in Genome Data Viewer
Location:
16 B1; 16 13.18 cM
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (22063302..22084755, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (22244552..22266005, complement)

Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_40388 Neighboring gene 60S ribosomal protein L35a-like Neighboring gene transmembrane protein 97 pseudogene Neighboring gene STARR-seq mESC enhancer starr_40389 Neighboring gene STARR-seq mESC enhancer starr_40390 Neighboring gene STARR-seq mESC enhancer starr_40391 Neighboring gene STARR-seq mESC enhancer starr_40392 Neighboring gene G protein subunit gamma 5, pseudogene Neighboring gene STARR-seq mESC enhancer starr_40393 Neighboring gene STARR-seq mESC enhancer starr_40394 Neighboring gene STARR-seq mESC enhancer starr_40398 Neighboring gene STARR-seq mESC enhancer starr_40399 Neighboring gene ets variant 5 Neighboring gene STARR-seq mESC enhancer starr_40400 Neighboring gene STARR-seq mESC enhancer starr_40406

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. How does Tra2β protein regulate tissue-specific RNA splicing? Elliott DJ, et al. Biochem Soc Trans, 2012 Aug. PMID 22817734, Free PMC Article
  2. Molecular cloning of a mouse homologue for the Drosophila splicing regulator Tra2. Segade F, et al. FEBS Lett, 1996 Jun 3. PMID 8674539
  3. TRA2β controls Mypt1 exon 24 splicing in the developmental maturation of mouse mesenteric artery smooth muscle. Zheng X, et al. Am J Physiol Cell Physiol, 2015 Feb 15. PMID 25428883, Free PMC Article
  4. Transformer 2β homolog (Drosophila) (TRA2B) regulates protein kinase C δI (PKCδI) splice variant expression during 3T3L1 preadipocyte cell cycle. Patel RS, et al. J Biol Chem, 2014 Nov 14. PMID 25261467, Free PMC Article
  5. Tra2β protein is required for tissue-specific splicing of a smooth muscle myosin phosphatase targeting subunit alternative exon. Fu K, et al. J Biol Chem, 2012 May 11. PMID 22437831, Free PMC Article

See all (59) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Tra2beta Enhances Cell Proliferation by Inducing the Expression of Transcription Factor SP1 in Cervical Cancer.
    Title: Tra2β Enhances Cell Proliferation by Inducing the Expression of Transcription Factor SP1 in Cervical Cancer.
  2. This study demonstrated that the expressions of TRA2beta in the Lateral Geniculate Nucleus , Retina, and Superior Colliculus are Normal but Apoptosis in Lateral Geniculate Nucleus cells and Thalamocortical Projections in Tra2beta cKO Mice Before Birth.
    Title: Reciprocal Connections Between Cortex and Thalamus Contribute to Retinal Axon Targeting to Dorsal Lateral Geniculate Nucleus.
  3. results indicate that high expression level of Tra2-beta1 is responsible for increased SMN2 exon 7 inclusion in the testis of SMA mice.
    Title: High expression level of Tra2-β1 is responsible for increased SMN2 exon 7 inclusion in the testis of SMA mice.
  4. Maturation of mesenteric artery smooth muscle involves TRA2beta mediated Mypt1 exon 24 splicing.
    Title: TRA2β controls Mypt1 exon 24 splicing in the developmental maturation of mouse mesenteric artery smooth muscle.
  5. TRA2B has a role in regulating protein kinase C deltaI splice variant expression during 3T3L1 preadipocyte cell cycle
    Title: Transformer 2β homolog (Drosophila) (TRA2B) regulates protein kinase C δI (PKCδI) splice variant expression during 3T3L1 preadipocyte cell cycle.
  6. Tra2b regulates splicing events essential for maintaining neuronal viability during development.
    Title: Neuronal-specific deficiency of the splicing factor Tra2b causes apoptosis in neurogenic areas of the developing mouse brain.
  7. TRA2B is essential for proper development of the cerebral cortex.
    Title: Splicing factor TRA2B is required for neural progenitor survival.
  8. Sfrs10 expression is observed in rod photoreceptors in a peri-nuclear pattern.
    Title: The expression analysis of Sfrs10 and Celf4 during mouse retinal development.
  9. Tra2beta, by regulating the splicing of Mypt1 E23, sets the sensitivity of smooth muscle to cGMP-mediated relaxation.
    Title: Tra2β protein is required for tissue-specific splicing of a smooth muscle myosin phosphatase targeting subunit alternative exon.
  10. Normal activation of these regulated exons depends on multiple Tra2b binding sites, and significant mis-regulation of these exons is observed during mouse development when Tra2b is removed.
    Title: Identification of evolutionarily conserved exons as regulated targets for the splicing activator tra2β in development.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 
  • Targeted (5)  1 citation
  • Endonuclease-mediated (4) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC102169

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables mRNA binding ISO
Inferred from Sequence Orthology
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables pre-mRNA binding ISO
Inferred from Sequence Orthology
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein domain specific binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within RNA splicing IEA
Inferred from Electronic Annotation
more info
  
involved_in cellular response to glucose stimulus ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within cerebral cortex regionalization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within embryonic brain development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of mRNA splicing, via spliceosome IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within positive regulation of mRNA splicing, via spliceosome IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of RNA splicing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of RNA splicing ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of alternative mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in nuclear inner membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
located_in perinuclear region of cytoplasm ISO
Inferred from Sequence Orthology
more info
  
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
  
part_of spliceosomal complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of spliceosomal complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
transformer-2 protein homolog beta
Names
silica-induced gene 41 protein
splicing factor, arginine/serine-rich 10 (transformer 2 homolog, Drosophila)
transformer 2 beta homolog
transformer-2 protein homolog B

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_001330554.1 → NP_001317483.1  transformer-2 protein homolog beta isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 3' coding region compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.
    Source sequence(s)
    AC154605, AI847347, AK049573, CT009567, DV647445
    UniProtKB/Swiss-Prot
    P62996
    Conserved Domains (1) summary
    cd12363
    Location:117 → 196
    RRM_TRA2; RNA recognition motif (RRM) found in transformer-2 protein homolog TRA2-alpha, TRA2-beta and similar proteins

  2. NM_001330555.1 → NP_001317484.1  transformer-2 protein homolog beta isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains an alternate exon in the 5' region and initiates translation from a downstream start codon compared to variant 1. It encodes isoform 3 which has a shorter N-terminus compared to isoform 1.
    Source sequence(s)
    AC154605, AI847347, AK049573, CA576639, CT009567
    Consensus CDS
    CCDS84216.1
    UniProtKB/TrEMBL
    F8WJG3
    Related
    ENSMUSP00000023564.10, ENSMUST00000023564.10
    Conserved Domains (1) summary
    cd12641
    Location:11 → 97
    RRM_TRA2B; RNA recognition motif (RRM) found in Transformer-2 protein homolog beta (TRA-2 beta) and similar proteins

  3. NM_009186.5 → NP_033212.1  transformer-2 protein homolog beta isoform 1

    See identical proteins and their annotated locations for NP_033212.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC154605, AI847347, AK049573, CT009567
    Consensus CDS
    CCDS37297.1
    UniProtKB/Swiss-Prot
    P62996
    Related
    ENSMUSP00000124846.2, ENSMUST00000161286.8
    Conserved Domains (1) summary
    cd12363
    Location:117 → 196
    RRM_TRA2; RNA recognition motif (RRM) found in transformer-2 protein homolog TRA2-alpha, TRA2-beta and similar proteins

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000082.7 Reference GRCm39 C57BL/6J

    Range
    22063302..22084755 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017316896.2 → XP_017172385.1  transformer-2 protein homolog beta isoform X1

    Conserved Domains (1) summary
    cd12641
    Location:11 → 97
    RRM_TRA2B; RNA recognition motif (RRM) found in Transformer-2 protein homolog beta (TRA-2 beta) and similar proteins
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P62996.1 GenPept UniProtKB/Swiss-Prot:P62996

Gene LinkOut

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