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    splicing factor-like protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 835204, updated on 18-Sep-2024

    Summary

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    Official Full Name
    splicing factor-like protein
    Primary source
    TAIR:AT5G51300
    Locus tag
    AT5G51300
    See related
    Araport:AT5G51300
    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
    Arabidopsis SF1 homolog; AtSF1; MWD22.25; MWD22_25
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    Genomic context

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    Location:
    chromosome: 5
    Exon count:
    2
    Sequence:
    Chromosome: 5; NC_003076.8 (20848794..20852384, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene U-box domain-containing protein kinase family protein Neighboring gene DEAD-box protein abstrakt Neighboring gene Diacylglycerol kinase family protein Neighboring gene 2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein Neighboring gene pseudo

    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. RRM domain of Arabidopsis splicing factor SF1 is important for pre-mRNA splicing of a specific set of genes. Lee KC, et al. Plant Cell Rep, 2017 Jul. PMID 28401337
    2. A homolog of splicing factor SF1 is essential for development and is involved in the alternative splicing of pre-mRNA in Arabidopsis thaliana. Jang YH, et al. Plant J, 2014 May. PMID 24580679
    3. The Arabidopsis splicing factors, AtU2AF65, AtU2AF35, and AtSF1 shuttle between nuclei and cytoplasms. Park HY, et al. Plant Cell Rep, 2017 Jul. PMID 28432478
    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. Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. RRM domain of Arabidopsis splicing factor SF1 is important for pre-mRNA splicing of a specific set of genes
      Title: RRM domain of Arabidopsis splicing factor SF1 is important for pre-mRNA splicing of a specific set of genes.
    2. The Arabidopsis splicing factors, AtU2AF65, AtU2AF35, and AtSF1 shuttle between nuclei and cytoplasms
      Title: The Arabidopsis splicing factors, AtU2AF65, AtU2AF35, and AtSF1 shuttle between nuclei and cytoplasms.
    3. Data indicate that the mutant allele of AtSF1 (At5g51300) containing a T-DNA insertion conferred pleiotropic developmental defects, including early flowering and abnormal sensitivity to abscisic acid.
      Title: A homolog of splicing factor SF1 is essential for development and is involved in the alternative splicing of pre-mRNA in Arabidopsis thaliana.
    Submit: New GeneRIF Correction

    General gene information

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    NM_001036978.2
    NM_124509.4
    NM_180838.2

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in RNA splicing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within RNA splicing NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in response to abscisic acid IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    splicing factor-like protein
    NP_001032055.1
    • splicing factor-related; FUNCTIONS IN: RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding; INVOLVED IN: RNA splicing; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: K Homology (InterPro:IPR004087), K Homology, type 1, subgroup (InterPro:IPR018111), RNA recognition motif, RNP-1 (InterPro:IPR000504), K Homology, type 1 (InterPro:IPR004088), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), Zinc finger, CCHC-type (InterPro:IPR001878); BEST Arabidopsis thaliana protein match is: RNA-binding KH domain-containing protein (TAIR:AT1G09660.1); Has 82686 Blast hits to 53020 proteins in 1818 species: Archae - 38; Bacteria - 8214; Metazoa - 37936; Fungi - 14163; Plants - 12444; Viruses - 1255; Other Eukaryotes - 8636 (source: NCBI BLink).
    NP_199943.1
    • splicing factor-related; FUNCTIONS IN: RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding; INVOLVED IN: RNA splicing; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: K Homology (InterPro:IPR004087), K Homology, type 1, subgroup (InterPro:IPR018111), RNA recognition motif, RNP-1 (InterPro:IPR000504), K Homology, type 1 (InterPro:IPR004088), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), Zinc finger, CCHC-type (InterPro:IPR001878); BEST Arabidopsis thaliana protein match is: RNA-binding KH domain-containing protein (TAIR:AT1G09660.1); Has 82683 Blast hits to 53017 proteins in 1817 species: Archae - 38; Bacteria - 8212; Metazoa - 37935; Fungi - 14163; Plants - 12444; Viruses - 1255; Other Eukaryotes - 8636 (source: NCBI BLink).
    NP_851169.1
    • splicing factor-related; FUNCTIONS IN: RNA binding, nucleotide binding, zinc ion binding, nucleic acid binding; INVOLVED IN: RNA splicing; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: K Homology (InterPro:IPR004087), K Homology, type 1, subgroup (InterPro:IPR018111), RNA recognition motif, RNP-1 (InterPro:IPR000504), K Homology, type 1 (InterPro:IPR004088), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), Zinc finger, CCHC-type (InterPro:IPR001878); BEST Arabidopsis thaliana protein match is: RNA-binding KH domain-containing protein (TAIR:AT1G09660.1); Has 986600 Blast hits to 958298 proteins in 35154 species: Archae - 20434; Bacteria - 569558; Metazoa - 210103; Fungi - 32531; Plants - 60683; Viruses - 65853; Other Eukaryotes - 27438 (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
      20848794..20852384 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_180838.2 → NP_851169.1  splicing factor-like protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_851169.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q94KA0, Q9LU44
      UniProtKB/TrEMBL
      A0A5S9YE42, A0A654G9W8
      Conserved Domains (6) summary
      cd02395
      Location:242 → 358
      SF1_like-KH; Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 ...
      pfam16275
      Location:126 → 237
      SF1-HH; Splicing factor 1 helix-hairpin domain
      cl17169
      Location:480 → 556
      RRM_SF; RNA recognition motif (RRM) superfamily
      cl25887
      Location:481 → 673
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cl26464
      Location:579 → 791
      Atrophin-1; Atrophin-1 family
      cl26705
      Location:363 → 405
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    2. NM_124509.4 → NP_199943.1  splicing factor-like protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_199943.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q94KA0, Q9LU44
      UniProtKB/TrEMBL
      A0A5S9YE42, A0A654G9W8
      Conserved Domains (6) summary
      cd02395
      Location:242 → 358
      SF1_like-KH; Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 ...
      pfam16275
      Location:126 → 237
      SF1-HH; Splicing factor 1 helix-hairpin domain
      cl17169
      Location:480 → 556
      RRM_SF; RNA recognition motif (RRM) superfamily
      cl25887
      Location:481 → 673
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cl26464
      Location:579 → 791
      Atrophin-1; Atrophin-1 family
      cl26705
      Location:363 → 405
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    3. NM_001036978.2 → NP_001032055.1  splicing factor-like protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001032055.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q94KA0, Q9LU44
      UniProtKB/TrEMBL
      A0A5S9YE42, A0A654G9W8
      Conserved Domains (6) summary
      cd02395
      Location:242 → 358
      SF1_like-KH; Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 ...
      pfam16275
      Location:126 → 237
      SF1-HH; Splicing factor 1 helix-hairpin domain
      cl17169
      Location:480 → 556
      RRM_SF; RNA recognition motif (RRM) superfamily
      cl25887
      Location:481 → 673
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cl26464
      Location:579 → 791
      Atrophin-1; Atrophin-1 family
      cl26705
      Location:363 → 405
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LU44.1

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