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Aliases for TRA2B Gene

Aliases for TRA2B Gene

  • Transformer 2 Beta Homolog (Drosophila) 2 3 5
  • Splicing Factor, Arginine/Serine-Rich 10 (Transformer 2 Homolog, Drosophila) 2 3
  • Transformer-2 Protein Homolog B 3 4
  • TRA-2 Beta 3 4
  • Htra2-Beta 3 4
  • TRA2-BETA 3 4
  • SFRS10 3 4
  • Protein Phosphatase 1, Regulatory Subunit 156 3
  • Splicing Factor, Arginine/Serine-Rich 10 4
  • Regulatory Subunit 156 2
  • Protein Phosphatase 1 2
  • PPP1R156 3
  • SRFS10 3
  • TRAN2B 3

External Ids for TRA2B Gene

Previous HGNC Symbols for TRA2B Gene

  • SFRS10

Previous GeneCards Identifiers for TRA2B Gene

  • GC03M187110
  • GC03M185632
  • GC03M183042

Summaries for TRA2B Gene

Entrez Gene Summary for TRA2B Gene

  • This gene encodes a nuclear protein which functions as sequence-specific serine/arginine splicing factor which plays a role in mRNA processing, splicing patterns, and gene expression. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2011]

GeneCards Summary for TRA2B Gene

TRA2B (Transformer 2 Beta Homolog (Drosophila)) is a Protein Coding gene. Diseases associated with TRA2B include tauopathy. Among its related pathways are Gene Expression and mRNA Splicing - Major Pathway. GO annotations related to this gene include nucleic acid binding and nucleotide binding. An important paralog of this gene is CIRBP.

UniProtKB/Swiss-Prot for TRA2B Gene

  • Sequence-specific RNA-binding protein which participates in the control of pre-mRNA splicing. Can either activate or suppress exon inclusion. Acts additively with RBMX to promote exon 7 inclusion of the survival motor neuron SMN2. Activates the splicing of MAPT/Tau exon 10. Alters pre-mRNA splicing patterns by antagonizing the effects of splicing regulators, like RBMX. Binds to the AG-rich SE2 domain in the SMN exon 7 RNA. Binds to pre-mRNA.

Gene Wiki entry for TRA2B Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRA2B Gene

Genomics for TRA2B Gene

Regulatory Elements for TRA2B Gene

Promoters for TRA2B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around TRA2B on UCSC Golden Path with GeneCards custom track

Genomic Location for TRA2B Gene

Chromosome:
3
Start:
185,914,568 bp from pter
End:
185,938,136 bp from pter
Size:
23,569 bases
Orientation:
Minus strand

Genomic View for TRA2B Gene

Genes around TRA2B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRA2B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRA2B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRA2B Gene

Proteins for TRA2B Gene

  • Protein details for TRA2B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P62995-TRA2B_HUMAN
    Recommended name:
    Transformer-2 protein homolog beta
    Protein Accession:
    P62995
    Secondary Accessions:
    • B4DVK2
    • D3DNU3
    • O15449
    • Q15815
    • Q64283

    Protein attributes for TRA2B Gene

    Size:
    288 amino acids
    Molecular mass:
    33666 Da
    Quaternary structure:
    • Interacts with SAFB/SAFB1 (By similarity). Found in a pre-mRNA exonic splicing enhancer (ESE) complex with TRA2B/SFRS10, SNRNP70, SNRPA1 and SRRM1. Binds to A3 enhancer proteins SFRS4, SFRS5, SFRS6 and SFRS9. Interacts with CPSF6, RBMY1A1, RBMX, RNPS1 and phosphorylated SFRS13A.

    Three dimensional structures from OCA and Proteopedia for TRA2B Gene

    Alternative splice isoforms for TRA2B Gene

neXtProt entry for TRA2B Gene

Proteomics data for TRA2B Gene at MOPED

Post-translational modifications for TRA2B Gene

Other Protein References for TRA2B Gene

No data available for DME Specific Peptides for TRA2B Gene

Domains & Families for TRA2B Gene

Protein Domains for TRA2B Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for TRA2B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P62995

UniProtKB/Swiss-Prot:

TRA2B_HUMAN :
  • Contains 1 RRM (RNA recognition motif) domain.
  • Belongs to the splicing factor SR family.
Domain:
  • Contains 1 RRM (RNA recognition motif) domain.
Family:
  • Belongs to the splicing factor SR family.
genes like me logo Genes that share domains with TRA2B: view

Function for TRA2B Gene

Molecular function for TRA2B Gene

UniProtKB/Swiss-Prot Function:
Sequence-specific RNA-binding protein which participates in the control of pre-mRNA splicing. Can either activate or suppress exon inclusion. Acts additively with RBMX to promote exon 7 inclusion of the survival motor neuron SMN2. Activates the splicing of MAPT/Tau exon 10. Alters pre-mRNA splicing patterns by antagonizing the effects of splicing regulators, like RBMX. Binds to the AG-rich SE2 domain in the SMN exon 7 RNA. Binds to pre-mRNA.

Gene Ontology (GO) - Molecular Function for TRA2B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003676 nucleic acid binding IEA --
GO:0003729 mRNA binding IDA 12165565
genes like me logo Genes that share ontologies with TRA2B: view
genes like me logo Genes that share phenotypes with TRA2B: view

Animal Models for TRA2B Gene

MGI Knock Outs for TRA2B:

Animal Model Products

CRISPR Products

miRNA for TRA2B Gene

miRTarBase miRNAs that target TRA2B

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TRA2B Gene

Localization for TRA2B Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRA2B Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TRA2B Gene COMPARTMENTS Subcellular localization image for TRA2B gene
Compartment Confidence
nucleus 5
cytosol 2

No data available for Gene Ontology (GO) - Cellular Components for TRA2B Gene

Pathways & Interactions for TRA2B Gene

genes like me logo Genes that share pathways with TRA2B: view

Pathways by source for TRA2B Gene

1 KEGG pathway for TRA2B Gene

Gene Ontology (GO) - Biological Process for TRA2B Gene

None

No data available for SIGNOR curated interactions for TRA2B Gene

Drugs & Compounds for TRA2B Gene

No Compound Related Data Available

Transcripts for TRA2B Gene

Unigene Clusters for TRA2B Gene

Transformer 2 beta homolog (Drosophila):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for TRA2B Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7a · 7b · 7c · 7d ^ 8a · 8b ^ 9 ^ 10a · 10b ^ 11 ^ 12 ^ 13a · 13b · 13c
SP1: - - - - - - - -
SP2: - - - - - - - - - -
SP3: - - - -
SP4:
SP5:
SP6: - - - - - - - - - -
SP7: - - -
SP8: - - - - -
SP9:
SP10:
SP11: - -

Relevant External Links for TRA2B Gene

GeneLoc Exon Structure for
TRA2B
ECgene alternative splicing isoforms for
TRA2B

Expression for TRA2B Gene

mRNA expression in normal human tissues for TRA2B Gene

Protein differential expression in normal tissues from HIPED for TRA2B Gene

This gene is overexpressed in Peripheral blood mononuclear cells (8.1), Fetal Brain (6.4), and Fetal ovary (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for TRA2B Gene



SOURCE GeneReport for Unigene cluster for TRA2B Gene Hs.533122

mRNA Expression by UniProt/SwissProt for TRA2B Gene

P62995-TRA2B_HUMAN
Tissue specificity: Highest expression in heart, skeletal muscle and pancreas. Less abundant in kidney, placenta and brain. Lowest expression in kidney and liver.
genes like me logo Genes that share expression patterns with TRA2B: view

Protein tissue co-expression partners for TRA2B Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for TRA2B Gene

Orthologs for TRA2B Gene

This gene was present in the common ancestor of animals.

Orthologs for TRA2B Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia TRA2B 35
  • 93.63 (n)
  • 100 (a)
TRA2B 36
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TRA2B 35
  • 95.25 (n)
  • 100 (a)
TRA2B 36
  • 99 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Tra2b 35
  • 91.67 (n)
  • 100 (a)
Tra2b 16
Tra2b 36
  • 100 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia TRA2B 35
  • 99.88 (n)
  • 100 (a)
TRA2B 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Tra2b 35
  • 91.2 (n)
  • 100 (a)
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 86 (a)
OneToMany
-- 36
  • 100 (a)
OneToMany
-- 36
  • 60 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia TRA2B 36
  • 100 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRA2B 35
  • 83.9 (n)
  • 98.13 (a)
TRA2B 36
  • 98 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TRA2B 36
  • 95 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tra2b 35
  • 78.53 (n)
  • 91.76 (a)
Str.7343 35
African clawed frog
(Xenopus laevis)
Amphibia LOC398448 35
zebrafish
(Danio rerio)
Actinopterygii zgc56612 35
tra2b 36
  • 77 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta tra2 36
  • 44 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea rsp-8 36
  • 35 (a)
OneToMany
Species with no ortholog for TRA2B:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for TRA2B Gene

ENSEMBL:
Gene Tree for TRA2B (if available)
TreeFam:
Gene Tree for TRA2B (if available)

Paralogs for TRA2B Gene

(6) SIMAP similar genes for TRA2B Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with TRA2B: view

Variants for TRA2B Gene

Sequence variations from dbSNP and Humsavar for TRA2B Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs759847 -- 185,916,230(+) AGATT(C/T)GAGAc utr-variant-3-prime
rs759848 -- 185,916,322(+) ctaag(C/G)taagt downstream-variant-500B, utr-variant-3-prime
rs1061425 -- 185,916,887(+) GGAAC(A/C/G/T)CTATA utr-variant-3-prime
rs1804656 -- 185,917,576(-) CTTTT(G/T)GTGGA utr-variant-3-prime
rs2300921 -- 185,933,213(+) GGCCA(C/T)AGCTC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TRA2B Gene

Variant ID Type Subtype PubMed ID
esv2660289 CNV Deletion 23128226
nsv461035 CNV Loss 19166990

Variation tolerance for TRA2B Gene

Residual Variation Intolerance Score: 30.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.19; 4.28% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TRA2B Gene

HapMap Linkage Disequilibrium report
TRA2B
Human Gene Mutation Database (HGMD)
TRA2B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRA2B Gene

Disorders for TRA2B Gene

MalaCards: The human disease database

(1) MalaCards diseases for TRA2B Gene - From: DISEASES and Novoseek

Disorder Aliases PubMed IDs
tauopathy
  • tauopathies
- elite association - COSMIC cancer census association via MalaCards
Search TRA2B in MalaCards View complete list of genes associated with diseases

Relevant External Links for TRA2B

Genetic Association Database (GAD)
TRA2B
Human Genome Epidemiology (HuGE) Navigator
TRA2B
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRA2B
genes like me logo Genes that share disorders with TRA2B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TRA2B Gene

Publications for TRA2B Gene

  1. Human transformer-2-beta gene (SFRS10): complete nucleotide sequence, chromosomal localization, and generation of a tissue-specific isoform. (PMID: 9790768) Nayler O. … Stamm S. (Genomics 1998) 2 3 4 23 67
  2. Up-regulation of the ubiquitous alternative splicing factor Tra2beta causes inclusion of a germ cell-specific exon. (PMID: 16000324) Venables J.P. … Elliott D.J. (Hum. Mol. Genet. 2005) 3 23
  3. Human RNPS1 and its associated factors: a versatile alternative pre- mRNA splicing regulator in vivo. (PMID: 14729963) Sakashita E. … Mayeda A. (Mol. Cell. Biol. 2004) 3 23
  4. Human transformer 2beta and SRp55 interact with a calcitonin-specific splice enhancer. (PMID: 12531473) Tran Q. … Roesser J.R. (Biochim. Biophys. Acta 2003) 3 23
  5. Mutations in tau gene exon 10 associated with FTDP-17 alter the activity of an exonic splicing enhancer to interact with Tra2 beta. (PMID: 12649279) Jiang Z. … Wu J.Y. (J. Biol. Chem. 2003) 3 23

Products for TRA2B Gene

Sources for TRA2B Gene

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