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    AtRZ-1c RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain-containing protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 830307, updated on 18-Sep-2024

    Summary

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    Official Symbol
    AtRZ-1c
    Official Full Name
    RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain-containing protein
    Primary source
    TAIR:AT5G04280
    Locus tag
    AT5G04280
    See related
    Araport:AT5G04280
    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
    RZ-1c; T19N18.10; T19N18_10
    Summary
    Encodes one of the zinc finger-containing glycine-rich RNA-binding proteins involved in cold tolerance: AT3G26420 (ATRZ-1A), AT1G60650 (AtRZ-1b), AT5G04280 (AtRZ-1c).
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    Genomic context

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    See AtRZ-1c in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    4
    Sequence:
    Chromosome: 5; NC_003076.8 (1192259..1195759)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene DHHC-type zinc finger family protein Neighboring gene ncRNA Neighboring gene kow domain-containing transcription factor 1 Neighboring gene Pectin lyase-like superfamily protein

    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. RNA Binding Proteins RZ-1B and RZ-1C Play Critical Roles in Regulating Pre-mRNA Splicing and Gene Expression during Development in Arabidopsis. Wu Z, et al. Plant Cell, 2016 Jan. PMID 26721863, Free PMC Article
    2. Comparative analysis of Arabidopsis zinc finger-containing glycine-rich RNA-binding proteins during cold adaptation. Kim WY, et al. Plant Physiol Biochem, 2010 Oct-Nov. PMID 20850334
    3. Organizer-Derived WOX5 Signal Maintains Root Columella Stem Cells through Chromatin-Mediated Repression of CDF4 Expression. Pi L, et al. Dev Cell, 2015 Jun 8. PMID 26028217
    4. Proteomic analysis of the Arabidopsis nucleolus suggests novel nucleolar functions. Pendle AF, et al. Mol Biol Cell, 2005 Jan. PMID 15496452, Free PMC Article
    5. In Planta Determination of the mRNA-Binding Proteome of Arabidopsis Etiolated Seedlings. Reichel M, et al. Plant Cell, 2016 Oct. PMID 27729395, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. RZ-1B and RZ-1C were localized to nuclear speckles and interacted with a spectrum of serine/arginine-rich (SR) proteins through their C termini.
      Title: RNA Binding Proteins RZ-1B and RZ-1C Play Critical Roles in Regulating Pre-mRNA Splicing and Gene Expression during Development 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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    Markers

    Homology

    NM_001342757.1
    NM_001342758.1
    NM_001342759.1
    NM_120510.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables chromatin DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables mRNA binding HDA PubMed 
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables nucleic acid binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within negative regulation of DNA-templated transcription IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of mRNA splicing, via spliceosome IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within response to cold IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    acts_upstream_of_or_within response to cold IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    NOT involved_in response to salt stress IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    acts_upstream_of_or_within response to water deprivation IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleolus HDA PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  
    located_in plasma membrane HDA PubMed 

    General protein information

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    Preferred Names
    RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain-containing protein
    NP_196048.1
    • RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain; FUNCTIONS IN: RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding; INVOLVED IN: biological_process unknown; LOCATED IN: nucleolus; EXPRESSED IN: 26 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, glycine rich protein (InterPro:IPR015465), RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), Zinc finger, CCHC-type (InterPro:IPR001878); BEST Arabidopsis thaliana protein match is: RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (TAIR:AT1G60650.2); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (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
      1192259..1195759
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001342756.1 → NP_001330679.1  RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UMU1, C0Z388
      Conserved Domains (2) summary
      pfam00098
      Location:90 → 105
      zf-CCHC; Zinc knuckle
      cl17169
      Location:1 → 48
      RRM_SF; RNA recognition motif (RRM) superfamily

    2. NM_120510.4 → NP_196048.1  RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_196048.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q8RWN5
      UniProtKB/TrEMBL
      A0A178UK29, A0A5S9Y205, A0A654FYD3
      Conserved Domains (2) summary
      smart00360
      Location:8 → 80
      RRM; RNA recognition motif
      pfam00098
      Location:128 → 143
      zf-CCHC; Zinc knuckle

    3. NM_001342757.1 → NP_001330680.1  RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UMU1, C0Z388
      Conserved Domains (2) summary
      pfam00098
      Location:90 → 105
      zf-CCHC; Zinc knuckle
      cl17169
      Location:1 → 48
      RRM_SF; RNA recognition motif (RRM) superfamily

    4. NM_001342758.1 → NP_001330677.1  RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UMU1, C0Z388
      Conserved Domains (2) summary
      pfam00098
      Location:90 → 105
      zf-CCHC; Zinc knuckle
      cl17169
      Location:1 → 48
      RRM_SF; RNA recognition motif (RRM) superfamily

    5. NM_001342759.1 → NP_001330678.1  RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UMU1, C0Z388
      Conserved Domains (2) summary
      pfam00098
      Location:90 → 105
      zf-CCHC; Zinc knuckle
      cl17169
      Location:1 → 48
      RRM_SF; RNA recognition motif (RRM) superfamily
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8RWN5.1

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