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P62996

- TRA2B_MOUSE

UniProt

P62996 - TRA2B_MOUSE

Protein

Transformer-2 protein homolog beta

Gene

Tra2b

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 100 (01 Oct 2014)
      Sequence version 1 (31 Aug 2004)
      Previous versions | rss
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    Functioni

    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 By similarity.By similarity

    GO - Molecular functioni

    1. mRNA binding Source: UniProtKB
    2. nucleotide binding Source: InterPro

    GO - Biological processi

    1. mRNA splicing, via spliceosome Source: UniProtKB
    2. positive regulation of mRNA splicing, via spliceosome Source: UniProtKB
    3. regulation of alternative mRNA splicing, via spliceosome Source: UniProtKB

    Keywords - Molecular functioni

    Activator, Repressor

    Keywords - Biological processi

    mRNA processing, mRNA splicing

    Keywords - Ligandi

    RNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Transformer-2 protein homolog beta
    Short name:
    TRA-2 beta
    Short name:
    TRA2-beta
    Alternative name(s):
    Silica-induced gene 41 protein
    Short name:
    SIG-41
    Splicing factor, arginine/serine-rich 10
    Transformer-2 protein homolog B
    Gene namesi
    Name:Tra2b
    Synonyms:Sfrs10, Silg41
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 16

    Organism-specific databases

    MGIiMGI:106016. Tra2b.

    Subcellular locationi

    Nucleus By similarity

    GO - Cellular componenti

    1. nucleus Source: UniProtKB

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methioninei1 – 11RemovedBy similarity
    Chaini2 – 288287Transformer-2 protein homolog betaPRO_0000081984Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei2 – 21N-acetylserineBy similarity
    Modified residuei2 – 21PhosphoserineBy similarity
    Modified residuei4 – 41PhosphoserineBy similarity
    Modified residuei14 – 141PhosphoserineBy similarity
    Modified residuei83 – 831PhosphoserineBy similarity
    Modified residuei95 – 951PhosphoserineBy similarity
    Modified residuei97 – 971PhosphoserineBy similarity
    Modified residuei99 – 991PhosphoserineBy similarity
    Modified residuei103 – 1031PhosphothreonineBy similarity
    Modified residuei201 – 2011PhosphothreonineBy similarity
    Modified residuei203 – 2031PhosphothreonineBy similarity
    Modified residuei241 – 2411Dimethylated arginineBy similarity

    Keywords - PTMi

    Acetylation, Methylation, Phosphoprotein

    Proteomic databases

    PaxDbiP62996.
    PRIDEiP62996.

    PTM databases

    PhosphoSiteiP62996.

    Expressioni

    Tissue specificityi

    Widely expressed. Highly expressed in uterus and brain.1 Publication

    Inductioni

    Induced by reoxygenation following hypoxia and by exposure to silica. Repressed by interferon gamma, LPS and TPA.1 Publication

    Gene expression databases

    ArrayExpressiP62996.
    BgeeiP62996.
    GenevestigatoriP62996.

    Interactioni

    Subunit structurei

    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, RNPS1, SAFB/SAFB1, RBMX and phosphorylated SFRS13A By similarity.By similarity

    Protein-protein interaction databases

    BioGridi203252. 1 interaction.
    IntActiP62996. 2 interactions.
    MINTiMINT-4138402.

    Structurei

    3D structure databases

    ProteinModelPortaliP62996.
    SMRiP62996. Positions 106-229.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini118 – 19679RRMPROSITE-ProRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni193 – 23038LinkerAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi31 – 11383Arg/Ser-rich (RS1 domain)Add
    BLAST
    Compositional biasi231 – 28757Arg/Ser-rich (RS2 domain)Add
    BLAST

    Sequence similaritiesi

    Belongs to the splicing factor SR family.Curated
    Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiNOG297815.
    GeneTreeiENSGT00710000106295.
    HOGENOMiHOG000276232.
    HOVERGENiHBG104971.
    InParanoidiP62996.
    KOiK12897.
    OMAiEYYSRSY.
    OrthoDBiEOG7SFHZZ.
    TreeFamiTF106265.

    Family and domain databases

    Gene3Di3.30.70.330. 1 hit.
    InterProiIPR012677. Nucleotide-bd_a/b_plait.
    IPR000504. RRM_dom.
    [Graphical view]
    PfamiPF00076. RRM_1. 1 hit.
    [Graphical view]
    SMARTiSM00360. RRM. 1 hit.
    [Graphical view]
    PROSITEiPS50102. RRM. 1 hit.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: P62996-1) [UniParc]FASTAAdd to Basket

    This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

    « Hide

    MSDSGEQNYG ERESRSASRS GSAHGSGKSA RHTPARSRSK EDSRRSRSKS    50
    RSRSESRSRS RRSSRRHYTR SRSRSRSHRR SRSRSYSRDY RRRHSHSHSP 100
    MSTRRRHVGN RANPDPNCCL GVFGLSLYTT ERDLREVFSK YGPIADVSIV 150
    YDQQSRRSRG FAFVYFENVD DAKEAKERAN GMELDGRRIR VDFSITKRPH 200
    TPTPGIYMGR PTYGSSRRRD YYDRGYDRGY DDRDYYSRSY RGGGGGGGGW 250
    RAAQDRDQIY RRRSPSPYYS RGGYRSRSRS RSYSPRRY 288
    Length:288
    Mass (Da):33,666
    Last modified:August 31, 2004 - v1
    Checksum:i60B310C8BA443E28
    GO
    Isoform 2 (identifier: P62996-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         23-38: AHGSGKSARHTPARSR → RHLTSFINEYLKLRNK
         39-288: Missing.

    Show »
    Length:38
    Mass (Da):4,392
    Checksum:iE499E3AFDD3D7BCA
    GO

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei23 – 3816AHGSG…PARSR → RHLTSFINEYLKLRNK in isoform 2. 1 PublicationVSP_011509Add
    BLAST
    Alternative sequencei39 – 288250Missing in isoform 2. 1 PublicationVSP_011510Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X80232 mRNA. Translation: CAA56518.1.
    AK049573 mRNA. Translation: BAC33819.1.
    AK077418 mRNA. Translation: BAC36791.1.
    AK080378 mRNA. Translation: BAC37898.1.
    BC061177 mRNA. Translation: AAH61177.1.
    CCDSiCCDS37297.1. [P62996-1]
    PIRiS68798.
    RefSeqiNP_033212.1. NM_009186.4. [P62996-1]
    UniGeneiMm.210352.
    Mm.389440.
    Mm.442193.

    Genome annotation databases

    EnsembliENSMUST00000161286; ENSMUSP00000124846; ENSMUSG00000022858. [P62996-1]
    ENSMUST00000162413; ENSMUSP00000123782; ENSMUSG00000022858.
    GeneIDi20462.
    KEGGimmu:20462.
    UCSCiuc007ysc.1. mouse. [P62996-1]

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X80232 mRNA. Translation: CAA56518.1 .
    AK049573 mRNA. Translation: BAC33819.1 .
    AK077418 mRNA. Translation: BAC36791.1 .
    AK080378 mRNA. Translation: BAC37898.1 .
    BC061177 mRNA. Translation: AAH61177.1 .
    CCDSi CCDS37297.1. [P62996-1 ]
    PIRi S68798.
    RefSeqi NP_033212.1. NM_009186.4. [P62996-1 ]
    UniGenei Mm.210352.
    Mm.389440.
    Mm.442193.

    3D structure databases

    ProteinModelPortali P62996.
    SMRi P62996. Positions 106-229.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 203252. 1 interaction.
    IntActi P62996. 2 interactions.
    MINTi MINT-4138402.

    PTM databases

    PhosphoSitei P62996.

    Proteomic databases

    PaxDbi P62996.
    PRIDEi P62996.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000161286 ; ENSMUSP00000124846 ; ENSMUSG00000022858 . [P62996-1 ]
    ENSMUST00000162413 ; ENSMUSP00000123782 ; ENSMUSG00000022858 .
    GeneIDi 20462.
    KEGGi mmu:20462.
    UCSCi uc007ysc.1. mouse. [P62996-1 ]

    Organism-specific databases

    CTDi 6434.
    MGIi MGI:106016. Tra2b.

    Phylogenomic databases

    eggNOGi NOG297815.
    GeneTreei ENSGT00710000106295.
    HOGENOMi HOG000276232.
    HOVERGENi HBG104971.
    InParanoidi P62996.
    KOi K12897.
    OMAi EYYSRSY.
    OrthoDBi EOG7SFHZZ.
    TreeFami TF106265.

    Miscellaneous databases

    NextBioi 24991.
    PROi P62996.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi P62996.
    Bgeei P62996.
    Genevestigatori P62996.

    Family and domain databases

    Gene3Di 3.30.70.330. 1 hit.
    InterProi IPR012677. Nucleotide-bd_a/b_plait.
    IPR000504. RRM_dom.
    [Graphical view ]
    Pfami PF00076. RRM_1. 1 hit.
    [Graphical view ]
    SMARTi SM00360. RRM. 1 hit.
    [Graphical view ]
    PROSITEi PS50102. RRM. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Isolation of nine gene sequences induced by silica in murine macrophages."
      Segade F., Claudio E., Wrobel K., Ramos S., Lazo P.S.
      J. Immunol. 154:2384-2392(1995) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), INDUCTION.
      Tissue: Macrophage.
    2. "Molecular cloning of a mouse homologue for the Drosophila splicing regulator Tra2."
      Segade F., Hurle B., Claudio E., Ramos S., Lazo P.S.
      FEBS Lett. 387:152-156(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), TISSUE SPECIFICITY.
    3. "The transcriptional landscape of the mammalian genome."
      Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
      , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
      Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
      Strain: C57BL/6J.
      Tissue: Thymus.
    4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
      Tissue: Brain.

    Entry informationi

    Entry nameiTRA2B_MOUSE
    AccessioniPrimary (citable) accession number: P62996
    Secondary accession number(s): O15449, Q15815, Q64283
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: August 31, 2004
    Last sequence update: August 31, 2004
    Last modified: October 1, 2014
    This is version 100 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. MGD cross-references
      Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3