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Aliases for TRA2B Gene

Aliases for TRA2B Gene

  • Transformer 2 Beta Homolog 2 3
  • Splicing Factor, Arginine/Serine-Rich 10 (Transformer 2 Homolog, Drosophila) 2 3
  • Protein Phosphatase 1, Regulatory Subunit 156 2 3
  • Transformer 2 Beta Homolog (Drosophila) 2 5
  • Transformer-2 Protein Homolog B 3 4
  • TRA-2 Beta 3 4
  • Htra2-Beta 3 4
  • TRA2-BETA 3 4
  • SFRS10 3 4
  • Splicing Factor, Arginine/Serine-Rich 10 4
  • Transformer-2 Protein Homolog Beta 3
  • 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) is a Protein Coding gene. Among its related pathways are mRNA Splicing - Major Pathway and Gene Expression. GO annotations related to this gene include nucleic acid binding and nucleotide binding. An important paralog of this gene is TRA2A.

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 CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRA2B Gene

Genomics for TRA2B Gene

Regulatory Elements for TRA2B Gene

Enhancers for TRA2B Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH03G185958 1.5 Ensembl ENCODE dbSUPER 12.3 -22.0 -22015 3.3 ATF1 ARID4B FEZF1 FOS DEK TSHZ1 REST MAFF ZNF610 SMARCA4 ENSG00000200418 SNORA4 SNORA81 RPL4P4 TRA2B ETV5 TBCCD1 ETV5-AS1 AHSG RPS20P14
GH03G185723 1.8 FANTOM5 Ensembl ENCODE dbSUPER 9.7 +206.9 206870 15.2 PKNOX1 ARID4B FEZF1 TCF12 ZNF766 GATA2 FOS DEK JUNB REST TRA2B VPS8 IGF2BP2-AS1 MIR548AQ
GH03G185701 1.5 Ensembl ENCODE dbSUPER 9.6 +234.7 234670 3.9 HDGF PKNOX1 MLX ARNT ARID4B FEZF1 ZNF48 YY1 ZNF263 SP5 TRA2B IGF2BP2-AS1 PIR53085
GH03G185814 1.4 Ensembl ENCODE dbSUPER 9.7 +122.3 122292 2.0 HDAC1 HDGF PKNOX1 ATF1 NFRKB ZBTB40 TCF12 CREM ZNF592 POLR2H IGF2BP2-AS1 TRA2B IGF2BP2 MIR548AQ
GH03G186241 1.3 Ensembl ENCODE 10.3 -304.2 -304174 1.4 MLX SIN3A ARID4B DMAP1 FEZF1 SLC30A9 ZNF143 FOS MXD4 JUNB ETV5 TRA2B ETV5-AS1 AHSG GC03P186167 DGKG
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TRA2B on UCSC Golden Path with GeneCards custom track

Promoters for TRA2B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000163126 1936 4401 MLX CREB3L1 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC PPARGC1A

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

Post-translational modifications for TRA2B Gene

Antibody Products

  • Cloud-Clone Corp. Antibodies for TRA2B

No data available for DME Specific Peptides for TRA2B Gene

Domains & Families for TRA2B Gene

Protein Domains for TRA2B Gene

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 :
  • Belongs to the splicing factor SR family.
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:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IMP,IEA 10749975
GO:0003729 mRNA binding IDA 12165565
GO:0005515 protein binding IPI 10749975
GO:0019904 protein domain specific binding IPI 10749975
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

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TRA2B gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for TRA2B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA,IEA 9546399
GO:0005637 nuclear inner membrane IEA --
GO:0005654 nucleoplasm TAS --
GO:0005681 spliceosomal complex IMP 25689357
GO:0048471 perinuclear region of cytoplasm IEA --
genes like me logo Genes that share ontologies with TRA2B: view

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

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 IMP,IDA 25689357
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0006397 mRNA processing IEA --
genes like me logo Genes that share ontologies with TRA2B: view

No data available for SIGNOR curated interactions for TRA2B Gene

Transcripts for TRA2B Gene

Unigene Clusters for TRA2B Gene

Transformer 2 beta homolog (Drosophila):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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 from GTEx, Illumina, BioGPS, and CGAP SAGE 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



Protein tissue co-expression partners for TRA2B Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TRA2B Gene:

TRA2B

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.

Evidence on tissue expression from TISSUES for TRA2B Gene

  • Nervous system(4.9)
  • Lung(4.6)
  • Skin(4.6)
  • Spleen(4.4)
  • Intestine(3.1)
  • Kidney(2.4)
  • Bone marrow(2.3)
  • Eye(2.2)
genes like me logo Genes that share expression patterns with TRA2B: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer 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
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 100 (a)
OneToMany
-- 35
  • 86 (a)
OneToMany
-- 35
  • 60 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia TRA2B 35
  • 100 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia TRA2B 34 35
  • 99.88 (n)
dog
(Canis familiaris)
Mammalia TRA2B 34 35
  • 95.25 (n)
cow
(Bos Taurus)
Mammalia TRA2B 34 35
  • 93.63 (n)
mouse
(Mus musculus)
Mammalia Tra2b 34 16 35
  • 91.67 (n)
rat
(Rattus norvegicus)
Mammalia Tra2b 34
  • 91.2 (n)
chicken
(Gallus gallus)
Aves TRA2B 34 35
  • 83.9 (n)
lizard
(Anolis carolinensis)
Reptilia TRA2B 35
  • 95 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tra2b 34
  • 78.53 (n)
Str.7343 34
African clawed frog
(Xenopus laevis)
Amphibia LOC398448 34
zebrafish
(Danio rerio)
Actinopterygii tra2b 35
  • 77 (a)
OneToOne
zgc56612 34
fruit fly
(Drosophila melanogaster)
Insecta tra2 35
  • 44 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea rsp-8 35
  • 35 (a)
OneToMany
Species where no ortholog for TRA2B was found in the sources mined by GeneCards:
  • 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
rs1000040289 -- 185,933,651(+) GACTA(-/T)TATTT intron-variant
rs1000052374 -- 185,922,002(+) GAAAA(C/T)AAACT intron-variant
rs1000102064 -- 185,916,941(+) AAAGC(C/T)AGAAG utr-variant-3-prime
rs1000155967 -- 185,916,675(+) CTAAC(A/G/T)ATTAA downstream-variant-500B, utr-variant-3-prime
rs1000239069 -- 185,915,296(+) TTTAC(A/G)TTTGG utr-variant-3-prime

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

Variant ID Type Subtype PubMed ID
esv2660289 CNV deletion 23128226
esv3598980 CNV gain 21293372
esv3598981 CNV loss 21293372
nsv1142591 CNV deletion 24896259
nsv461035 CNV loss 19166990
nsv592705 CNV loss 21841781
nsv950022 CNV duplication 24416366

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

Human Gene Mutation Database (HGMD)
TRA2B
SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRA2B

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

Disorders for TRA2B Gene

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

No disorders were found for TRA2B Gene.

No data available for MalaCards , 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 22 64
  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 22 64
  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 22 64
  4. Thirty new loci for age at menarche identified by a meta-analysis of genome-wide association studies. (PMID: 21102462) Elks C.E. … Murray A. (Nat. Genet. 2010) 3 46 64
  5. Heterogeneous nuclear ribonucleoprotein G regulates splice site selection by binding to CC(A/C)-rich regions in pre-mRNA. (PMID: 19282290) Heinrich B. … Stamm S. (J. Biol. Chem. 2009) 3 4 64

Products for TRA2B Gene

Sources for TRA2B Gene

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