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    LOC4325394 serine/arginine-rich splicing factor SR45 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4325394, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4325394
    Gene description
    serine/arginine-rich splicing factor SR45
    Locus tag
    OSNPB_010959000
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
    Expression
    Ubiquitous expression in leaves after flowering (RPKM 34.5), flower buds (RPKM 34.4) and 6 other tissues See more
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    Genomic context

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    See LOC4325394 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (42927709..42932731)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (42275536..42280567)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4325392 Neighboring gene DNA mismatch repair protein MLH1 Neighboring gene abscisic stress-ripening protein 3 Neighboring gene abscisic stress-ripening protein 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome profiling of various organs at different developmental stages in rice Transcriptome profiling of various organs at different developmental stages in rice
    • Description: Transcriptom profiling in flower buds, flowers, flag leaves and roots sampled before flowering and after flowering, milk grains and mature seeds
    • BioProject: PRJNA243371
    • Publication: PMID 26387578
    • Analysis date: Fri Dec 15 20:02:59 2017

    Bibliography

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    Related articles in PubMed

    1. Two alternatively spliced isoforms of the Arabidopsis SR45 protein have distinct roles during normal plant development. Zhang XN, et al. Plant Physiol, 2009 Jul. PMID 19403727, Free PMC Article
    2. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Rice Full-Length cDNA Consortium, et al. Science, 2003 Jul 18. PMID 12869764

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of ASAP complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    serine/arginine-rich splicing factor SR45
    Names
    Os01g0959000
    P0401G10.11
    putative Ser/Arg-related nuclear matrix protein

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_034140825.1-RS_2024_06

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference ASM3414082v1 Primary Assembly

    Genomic

    1. NC_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      42927709..42932731
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015794411.3 → XP_015649897.1  serine/arginine-rich splicing factor SR45 isoform X1

      UniProtKB/TrEMBL
      A0A0P0VD78, A0A9K3Y8I0, Q0JFV6, Q5JN45
      Conserved Domains (2) summary
      COG0724
      Location:114 → 259
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12365
      Location:109 → 181
      RRM_RNPS1; RNA recognition motif (RRM) found in RNA-binding protein with serine-rich domain 1 (RNPS1) and similar proteins

    2. XM_015794417.3 → XP_015649903.1  serine/arginine-rich splicing factor SR45 isoform X2

      Conserved Domains (2) summary
      COG0724
      Location:114 → 259
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12365
      Location:109 → 181
      RRM_RNPS1; RNA recognition motif (RRM) found in RNA-binding protein with serine-rich domain 1 (RNPS1) and similar proteins
    Nucleotide Protein
    Heading Accession and Version

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