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Aliases for TRA2B Gene

Aliases for TRA2B Gene

  • Transformer 2 Beta Homolog (Drosophila) 2 3
  • SFRS10 3 4 6
  • 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
  • Protein Phosphatase 1, Regulatory Subunit 156 3
  • Splicing Factor, Arginine/Serine-Rich 10 4
  • Transformer-2 Protein Homolog Beta 3
  • Regulatory Subunit 156 2
  • Protein Phosphatase 1 2
  • PPP1R156 3
  • SRFS10 3
  • TRAN2B 3

External Ids for TRA2B Gene

Previous Symbols for TRA2B Gene

  • SFRS10

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. Among its related pathways are Spliceosome and mRNA Splicing - Major Pathway. GO annotations related to this gene include nucleotide binding and mRNA binding. An important paralog of this gene is RBMXL1.

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

Genomic Location for TRA2B Gene

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

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for TRA2B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRA2B Gene

Regulatory Elements 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 for TRA2B Gene

Gene Families for TRA2B Gene

HGNC:
  • RBM :RNA binding motif (RRM) containing

Protein Domains for TRA2B Gene

InterPro:
ProtoNet:

UniProtKB/Swiss-Prot:

TRA2B_HUMAN
Domain:
  • Contains 1 RRM (RNA recognition motif) domain.:
    • P62995
Family:
  • Belongs to the splicing factor SR family.:
    • P62995
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 --
GO:0003729 mRNA binding IDA 12165565
GO:0005515 protein binding IPI 10749975
GO:0044822 poly(A) RNA binding IDA 22658674
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:

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting 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 3

Gene Ontology (GO) - Cellular Components for TRA2B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 16791210
genes like me logo Genes that share ontologies with TRA2B: view

Pathways for TRA2B Gene

SuperPathways for TRA2B Gene

Superpath Contained pathways
1 Spliceosome
2 mRNA Splicing - Major Pathway
genes like me logo Genes that share pathways with TRA2B: view

Pathways by source for TRA2B Gene

1 BioSystems pathway for TRA2B Gene
1 KEGG pathway for TRA2B Gene

Gene Ontology (GO) - Biological Process for TRA2B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000302 response to reactive oxygen species IEA --
GO:0000375 RNA splicing, via transesterification reactions TAS 9546399
GO:0000381 regulation of alternative mRNA splicing, via spliceosome IDA 12165565
GO:0000398 mRNA splicing, via spliceosome IDA 9546399
GO:0048026 positive regulation of mRNA splicing, via spliceosome IDA 15009664
genes like me logo Genes that share ontologies with TRA2B: view

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB 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 expressions with TRA2B: view

Orthologs for TRA2B Gene

This gene was present in the common ancestor of animals.

Orthologs for TRA2B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRA2B 36
  • 99.88 (n)
  • 100 (a)
TRA2B 37
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TRA2B 36
  • 93.63 (n)
  • 100 (a)
TRA2B 37
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TRA2B 36
  • 95.25 (n)
  • 100 (a)
TRA2B 37
  • 99 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Tra2b 36
  • 91.67 (n)
  • 100 (a)
Tra2b 16
Tra2b 37
  • 100 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 37
  • 86 (a)
OneToMany
-- 37
  • 100 (a)
OneToMany
-- 37
  • 60 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia TRA2B 37
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Tra2b 36
  • 91.2 (n)
  • 100 (a)
chicken
(Gallus gallus)
Aves TRA2B 36
  • 83.9 (n)
  • 98.13 (a)
TRA2B 37
  • 98 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TRA2B 37
  • 95 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia LOC398448 36
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.7343 36
tra2b 36
  • 78.53 (n)
  • 91.76 (a)
zebrafish
(Danio rerio)
Actinopterygii tra2b 37
  • 77 (a)
OneToOne
zgc56612 36
fruit fly
(Drosophila melanogaster)
Insecta tra2 37
  • 44 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea rsp-8 37
  • 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

Paralogs for TRA2B Gene

Selected 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 MAF
rs759847 -- 185,916,230(+) AGATT(C/T)GAGAc utr-variant-3-prime
rs759848 -- 185,916,322(+) ctaag(C/G)taagt utr-variant-3-prime, downstream-variant-500B
rs1061425 -- 185,916,887(-) GGAAC(A/C)CTATA utr-variant-3-prime
rs1804656 -- 185,917,576(-) CTTTT(G/T)GTGGA utr-variant-3-prime
rs1862903 -- 185,934,396(+) TTCCT(C/T)TTCAA 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

Relevant External Links for TRA2B Gene

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

Disorders for TRA2B Gene

(1) Novoseek inferred disease relationships for TRA2B Gene

Disease -log(P) Hits PubMed IDs
tauopathies 68.6 1

Relevant External Links for TRA2B

Genetic Association Database (GAD)
TRA2B
Human Genome Epidemiology (HuGE) Navigator
TRA2B
genes like me logo Genes that share disorders with TRA2B: view

No data available for UniProtKB/Swiss-Prot 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
  2. 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 4 23
  3. Molecular cloning of htra2-beta-1 and htra2-beta-2, two human homologs of tra-2 generated by alternative splicing. (PMID: 9212162) Beil B. … Stamm S. (DNA Cell Biol. 1997) 3 4 23
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  5. Human Tra2 proteins are sequence-specific activators of pre-mRNA splicing. (PMID: 9546399) Tacke R. … Manley J.L. (Cell 1998) 3 4

Products for TRA2B Gene

Sources for TRA2B Gene

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