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

Summary

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: Predicted to enable RNA binding activity; identical protein binding activity; and protein domain specific binding activity. Involved in regulation of RNA splicing. Acts upstream of or within cerebral cortex regionalization; embryonic brain development; and positive regulation of mRNA splicing, via spliceosome. Located in nuclear inner membrane. Is expressed in several structures, including brain; central nervous system ganglion; extraembryonic component; olfactory epithelium; and retina. Orthologous to human TRA2B (transformer 2 beta homolog). [provided by Alliance of Genome Resources, Nov 2024]
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

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_000082.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Autoregulated splicing of TRA2beta programs T cell fate in response to antigen-receptor stimulation.
Title: Autoregulated splicing of TRA2β programs T cell fate in response to antigen-receptor stimulation.
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.
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.
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.
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.
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.
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.
TRA2B is essential for proper development of the cerebral cortex.
Title: Splicing factor TRA2B is required for neural progenitor survival.
Sfrs10 expression is observed in rod photoreceptors in a peri-nuclear pattern.
Title: The expression analysis of Sfrs10 and Celf4 during mouse retinal development.
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.

Submit: New GeneRIF Correction See all GeneRIFs (11)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (4)
Gene trapped (1)
Targeted (5) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH126681 (e-PCR)
- UniSTS:167183

Sfrs10 (e-PCR), detects polymorphism
- UniSTS:479262

D9Mit34.1 (e-PCR), detects polymorphism
- UniSTS:131903

D10Mit157.2 (e-PCR), detects polymorphism
- UniSTS:126061

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables mRNA binding	ISO Inferred from Sequence Orthology more info
enables mRNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables pre-mRNA 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	IEA Inferred from Electronic Annotation more info
enables protein domain specific binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in cellular response to glucose stimulus	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 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 mRNA splicing, via spliceosome	ISS Inferred from Sequence or Structural Similarity 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 positive regulation of mRNA splicing, via spliceosome	ISS Inferred from Sequence or Structural Similarity 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
involved_in regulation of alternative mRNA splicing, via spliceosome	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in nuclear inner membrane	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
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 nucleus	ISS Inferred from Sequence or Structural Similarity 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	IEA Inferred from Electronic Annotation 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)

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
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
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

NC_000082.7 Reference GRCm39 C57BL/6J

Range

22063302..22084755 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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