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    RS41 RNA-binding (RRM/RBD/RNP motifs) family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 835279, updated on 18-Sep-2024

    Summary

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    Official Symbol
    RS41
    Official Full Name
    RNA-binding (RRM/RBD/RNP motifs) family protein
    Primary source
    TAIR:AT5G52040
    Locus tag
    AT5G52040
    See related
    Araport:AT5G52040
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    ARGININE/SERINE-RICH SPLICING FACTOR; arginine/serine-rich splicing factor 41; At-RS41; ATRSP41; MSG15.12; MSG15_12
    Summary
    encodes an arginine/serine-rich splicing factor. transcript is alternatively spliced and is differentially expressed in different tissues (flowers, roots, stems, and leaves) examined. Barta et al (2010) have proposed a nomenclature for Serine/Arginine-Rich Protein Splicing Factors (SR proteins): Plant Cell. 2010, 22:2926.
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    Genomic context

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    See RS41 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    6
    Sequence:
    Chromosome: 5; NC_003076.8 (21130320..21133709)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene Integrase-type DNA-binding superfamily protein Neighboring gene TraB family protein Neighboring gene uncharacterized protein Neighboring gene MATE efflux family protein Neighboring gene miscRNA

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Characterization of a novel arginine/serine-rich splicing factor in Arabidopsis. Lopato S, et al. Plant Cell, 1996 Dec. PMID 8989882, Free PMC Article
    2. A KH-domain RNA-binding protein interacts with FIERY2/CTD phosphatase-like 1 and splicing factors and is important for pre-mRNA splicing in Arabidopsis. Chen T, et al. PLoS Genet, 2013. PMID 24146632, Free PMC Article
    3. The RNA-binding protein HOS5 and serine/arginine-rich proteins RS40 and RS41 participate in miRNA biogenesis in Arabidopsis. Chen T, et al. Nucleic Acids Res, 2015 Sep 30. PMID 26227967, Free PMC Article
    4. Phosphoproteomics reveals extensive in vivo phosphorylation of Arabidopsis proteins involved in RNA metabolism. de la Fuente van Bentem S, et al. Nucleic Acids Res, 2006. PMID 16807317, Free PMC Article
    5. Proteomic analysis of the 26S proteasome reveals its direct interaction with transit peptides of plastid protein precursors for their degradation. Sako K, et al. J Proteome Res, 2014 Jul 3. PMID 24846764

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Serine/arginine-rich splicing factors RS40 and RS41 affect the biogenesis of a subset of miRNA [RS41]
      Title: The RNA-binding protein HOS5 and serine/arginine-rich proteins RS40 and RS41 participate in miRNA biogenesis in Arabidopsis.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_001161301.1
    NM_001161302.1
    NM_124583.4
    NM_180843.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables mRNA binding HDA PubMed 
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within mRNA splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    acts_upstream_of_or_within primary miRNA processing IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm ISM
    Inferred from Sequence Model
    more info
    		  
    located_in nuclear dicing body IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  
    part_of spliceosomal complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    RNA-binding (RRM/RBD/RNP motifs) family protein
    NP_001154773.1
    • RNA-binding (RRM/RBD/RNP motifs) family protein; FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: nuclear mRNA splicing, via spliceosome, RNA splicing; LOCATED IN: spliceosomal complex; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677); BEST Arabidopsis thaliana protein match is: arginine/serine-rich splicing factor 35 (TAIR:AT4G25500.4); Has 11110 Blast hits to 8935 proteins in 394 species: Archae - 0; Bacteria - 129; Metazoa - 7201; Fungi - 1222; Plants - 1442; Viruses - 112; Other Eukaryotes - 1004 (source: NCBI BLink).
    NP_001154774.1
    • RNA-binding (RRM/RBD/RNP motifs) family protein; FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: nuclear mRNA splicing, via spliceosome, RNA splicing; LOCATED IN: spliceosomal complex; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677); BEST Arabidopsis thaliana protein match is: arginine/serine-rich splicing factor 35 (TAIR:AT4G25500.3); Has 11943 Blast hits to 9562 proteins in 408 species: Archae - 0; Bacteria - 134; Metazoa - 7691; Fungi - 1361; Plants - 1617; Viruses - 110; Other Eukaryotes - 1030 (source: NCBI BLink).
    NP_200017.2
    • ATRSP41; FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: nuclear mRNA splicing, via spliceosome, RNA splicing; LOCATED IN: spliceosomal complex; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677); BEST Arabidopsis thaliana protein match is: arginine/serine-rich splicing factor 35 (TAIR:AT4G25500.4); Has 505949 Blast hits to 500558 proteins in 22103 species: Archae - 10893; Bacteria - 305040; Metazoa - 98215; Fungi - 14010; Plants - 29487; Viruses - 35939; Other Eukaryotes - 12365 (source: NCBI BLink).
    NP_851174.1
    • ATRSP41; FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: nuclear mRNA splicing, via spliceosome, RNA splicing; LOCATED IN: spliceosomal complex; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677); BEST Arabidopsis thaliana protein match is: arginine/serine-rich splicing factor 35 (TAIR:AT4G25500.4); Has 506050 Blast hits to 500572 proteins in 22103 species: Archae - 10893; Bacteria - 305035; Metazoa - 98290; Fungi - 14007; Plants - 29495; Viruses - 35939; Other Eukaryotes - 12391 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003076.8 Reference assembly

      Range
      21130320..21133709
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001344974.1 → NP_001330348.1  RNA-binding (RRM/RBD/RNP motifs) family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UT35, A0A1P8BAJ3
      Conserved Domains (3) summary
      COG0724
      Location:2 → 248
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12466
      Location:56 → 125
      RRM2_AtRSp31_like; RNA recognition motif 2 (RRM2) found in Arabidopsis thaliana arginine/serine-rich-splicing factor RSp31 and similar proteins from plants
      cl17169
      Location:1 → 32
      RRM_SF; RNA recognition motif (RRM) superfamily

    2. NM_001344975.1 → NP_001330349.1  RNA-binding (RRM/RBD/RNP motifs) family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UT35
      Conserved Domains (3) summary
      COG0724
      Location:10 → 256
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12466
      Location:64 → 133
      RRM2_AtRSp31_like; RNA recognition motif 2 (RRM2) found in Arabidopsis thaliana arginine/serine-rich-splicing factor RSp31 and similar proteins from plants
      cl17169
      Location:3 → 40
      RRM_SF; RNA recognition motif (RRM) superfamily

    3. NM_001344976.1 → NP_001330347.1  RNA-binding (RRM/RBD/RNP motifs) family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UT35, A0A1P8BAJ3
      Conserved Domains (3) summary
      COG0724
      Location:2 → 248
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12466
      Location:56 → 125
      RRM2_AtRSp31_like; RNA recognition motif 2 (RRM2) found in Arabidopsis thaliana arginine/serine-rich-splicing factor RSp31 and similar proteins from plants
      cl17169
      Location:1 → 32
      RRM_SF; RNA recognition motif (RRM) superfamily

    4. NM_180843.3 → NP_851174.1  RNA-binding (RRM/RBD/RNP motifs) family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_851174.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      C0Z344, F4KES0, F4KES2, F4KES3, P92966, Q9FJ88
      UniProtKB/TrEMBL
      A0A178UPU3, A0A7G2FHI5
      Conserved Domains (3) summary
      COG0724
      Location:9 → 289
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12234
      Location:2 → 73
      RRM1_AtRSp31_like; RNA recognition motif (RRM) found in Arabidopsis thaliana arginine/serine-rich-splicing factor RSp31 and similar proteins from plants
      cd12466
      Location:97 → 166
      RRM2_AtRSp31_like; RNA recognition motif 2 (RRM2) found in Arabidopsis thaliana arginine/serine-rich-splicing factor RSp31 and similar proteins from plants

    5. NM_001161301.1 → NP_001154773.1  RNA-binding (RRM/RBD/RNP motifs) family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001154773.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UT35
      Conserved Domains (3) summary
      cd12466
      Location:70 → 139
      RRM2_AtRSp31_like; RNA recognition motif 2 in Arabidopsis thaliana arginine/serine-rich-splicing factor RSp31 and similar proteins from plants
      pfam05750
      Location:210 → 300
      Rubella_Capsid; Rubella capsid protein
      cl17169
      Location:10 → 46
      RRM_SF; RNA recognition motif (RRM) superfamily

    6. NM_001161302.1 → NP_001154774.1  RNA-binding (RRM/RBD/RNP motifs) family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001154774.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178USN4
      Conserved Domains (3) summary
      cd12466
      Location:64 → 133
      RRM2_AtRSp31_like; RNA recognition motif 2 in Arabidopsis thaliana arginine/serine-rich-splicing factor RSp31 and similar proteins from plants
      pfam05750
      Location:204 → 294
      Rubella_Capsid; Rubella capsid protein
      cl17169
      Location:3 → 40
      RRM_SF; RNA recognition motif (RRM) superfamily

    7. NM_124583.4 → NP_200017.2  RNA-binding (RRM/RBD/RNP motifs) family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_200017.2

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UPU3, A0A5S9YD72, A0A654GAD2
      Conserved Domains (3) summary
      COG0724
      Location:9 → 289
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12234
      Location:2 → 73
      RRM1_AtRSp31_like; RNA recognition motif (RRM) found in Arabidopsis thaliana arginine/serine-rich-splicing factor RSp31 and similar proteins from plants
      cd12466
      Location:97 → 166
      RRM2_AtRSp31_like; RNA recognition motif 2 (RRM2) found in Arabidopsis thaliana arginine/serine-rich-splicing factor RSp31 and similar proteins from plants
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P92966.2

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