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    Splicing factor, CC1-like protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 816197, updated on 18-Sep-2024

    Summary

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    Official Full Name
    Splicing factor, CC1-like protein
    Primary source
    TAIR:AT2G16940
    Locus tag
    AT2G16940
    See related
    Araport:AT2G16940
    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
    F12A24.12; F12A24_12
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    Genomic context

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    Location:
    chromosome: 2
    Exon count:
    17
    Sequence:
    Chromosome: 2; NC_003071.7 (7342607..7347464, complement)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene basic helix-loop-helix (bHLH) DNA-binding superfamily protein Neighboring gene ubiquitin-conjugating enzyme 23 Neighboring gene Ribosomal protein L27 family protein Neighboring gene transportin 1 Neighboring gene transportin

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003071.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. A DEK domain-containing protein modulates chromatin structure and function in Arabidopsis. Waidmann S, et al. Plant Cell, 2014 Nov. PMID 25387881, Free PMC Article
    2. Extensive signal integration by the phytohormone protein network. Altmann M, et al. Nature, 2020 Jul. PMID 32612234
    3. Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. Lin X, et al. Nature, 1999 Dec 16. PMID 10617197

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001202608.1
    NM_001202609.1
    NM_001335504.1
    NM_001335505.1
    NM_127247.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    Splicing factor, CC1-like protein
    NP_001189537.1
    • Splicing factor, CC1-like; FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: mRNA processing; LOCATED IN: nucleus; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Splicing factor, CC1-like (InterPro:IPR006509), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), RNA recognition, domain 1 (InterPro:IPR003954); BEST Arabidopsis thaliana protein match is: Splicing factor, CC1-like (TAIR:AT5G09880.1).
    NP_001189538.1
    • Splicing factor, CC1-like; FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: mRNA processing; LOCATED IN: nucleus; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Splicing factor, CC1-like (InterPro:IPR006509), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), RNA recognition, domain 1 (InterPro:IPR003954); BEST Arabidopsis thaliana protein match is: Splicing factor, CC1-like (TAIR:AT5G09880.1).
    NP_565399.1
    • Splicing factor, CC1-like; FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: mRNA processing; LOCATED IN: nucleus; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Splicing factor, CC1-like (InterPro:IPR006509), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677); BEST Arabidopsis thaliana protein match is: Splicing factor, CC1-like (TAIR:AT5G09880.1); Has 101521 Blast hits to 50249 proteins in 1917 species: Archae - 88; Bacteria - 8818; Metazoa - 50214; Fungi - 11566; Plants - 10292; Viruses - 445; Other Eukaryotes - 20098 (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_003071.7 Reference assembly

      Range
      7342607..7347464 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_127247.3 → NP_565399.1  Splicing factor, CC1-like protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_565399.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VT14, A0A5S9WYW0, Q8LE50, Q9ZVW9
      Conserved Domains (1) summary
      TIGR01622
      Location:30 → 558
      SF-CC1; splicing factor, CC1-like family

    2. NM_001335504.1 → NP_001324439.1  Splicing factor, CC1-like protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VUM6, Q8LPG3
      Conserved Domains (1) summary
      TIGR01622
      Location:20 → 417
      SF-CC1; splicing factor, CC1-like family

    3. NM_001202608.1 → NP_001189537.1  Splicing factor, CC1-like protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001189537.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A7G2EAM8, F4ILE0
      Conserved Domains (5) summary
      cd12283
      Location:212 → 293
      RRM1_RBM39_like; RNA recognition motif 1 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins
      cd12284
      Location:325 → 396
      RRM2_RBM23_RBM39; RNA recognition motif 2 in vertebrate RNA-binding protein RBM23, RBM39 and similar proteins
      cd12285
      Location:502 → 585
      RRM3_RBM39_like; RNA recognition motif 3 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins
      TIGR01622
      Location:30 → 596
      SF-CC1; splicing factor, CC1-like family
      pfam15519
      Location:425 → 520
      RBM39linker; linker between RRM2 and RRM3 domains in RBM39 protein

    4. NM_001202609.1 → NP_001189538.1  Splicing factor, CC1-like protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001189538.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      F4ILE1
      Conserved Domains (5) summary
      cd12283
      Location:232 → 304
      RRM1_RBM39_like; RNA recognition motif 1 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins
      cd12284
      Location:336 → 407
      RRM2_RBM23_RBM39; RNA recognition motif 2 in vertebrate RNA-binding protein RBM23, RBM39 and similar proteins
      cd12285
      Location:513 → 596
      RRM3_RBM39_like; RNA recognition motif 3 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins
      TIGR01622
      Location:30 → 607
      SF-CC1; splicing factor, CC1-like family
      pfam15519
      Location:436 → 531
      RBM39linker; linker between RRM2 and RRM3 domains in RBM39 protein

    5. NM_001335505.1 → NP_001324438.1  Splicing factor, CC1-like protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VUM6, Q8LPG3
      Conserved Domains (1) summary
      TIGR01622
      Location:20 → 417
      SF-CC1; splicing factor, CC1-like family
    Nucleotide Protein
    Heading Accession and Version

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