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

Gene ID: 20462, updated on 1-Mar-2024

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
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
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Genomic context

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

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

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
 
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

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_001330554.1NP_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:117196
    RRM_TRA2; RNA recognition motif (RRM) found in transformer-2 protein homolog TRA2-alpha, TRA2-beta and similar proteins
  2. NM_001330555.1NP_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:1197
    RRM_TRA2B; RNA recognition motif (RRM) found in Transformer-2 protein homolog beta (TRA-2 beta) and similar proteins
  3. NM_009186.5NP_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:117196
    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_017316896.2XP_017172385.1  transformer-2 protein homolog beta isoform X1

    Conserved Domains (1) summary
    cd12641
    Location:1197
    RRM_TRA2B; RNA recognition motif (RRM) found in Transformer-2 protein homolog beta (TRA-2 beta) and similar proteins