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

    Gene ID: 842359, updated on 18-Sep-2024

    Summary

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    Official Symbol
    AtRZ-1b
    Official Full Name
    RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain-containing protein
    Primary source
    TAIR:AT1G60650
    Locus tag
    AT1G60650
    See related
    Araport:AT1G60650
    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
    F8A5.17; F8A5_17; RZ-1b
    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-1b in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    6
    Sequence:
    Chromosome: 1; NC_003070.9 (22339809..22342337)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene Leucine-rich repeat protein kinase family protein Neighboring gene stress response protein Neighboring gene cytochrome B5-like protein Neighboring gene hypothetical protein (DUF3755) Neighboring gene ncRNA Neighboring gene NAD(P)-linked oxidoreductase superfamily protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003070.9

    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. Targeted interactomics reveals a complex core cell cycle machinery in Arabidopsis thaliana. Van Leene J, et al. Mol Syst Biol, 2010 Aug 10. PMID 20706207, Free PMC Article
    4. Discovering the RNA-Binding Proteome of Plant Leaves with an Improved RNA Interactome Capture Method. Bach-Pages M, et al. Biomolecules, 2020 Apr 24. PMID 32344669, Free PMC Article
    5. A Pan-plant Protein Complex Map Reveals Deep Conservation and Novel Assemblies. McWhite CD, et al. Cell, 2020 Apr 16. PMID 32191846, Free PMC Article

    See all (7) 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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    Homology

    NM_001333905.1
    NM_104748.3
    NM_179501.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    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 cytoplasm ISM
    Inferred from Sequence Model
    more info
    		  
    located_in nuclear speck IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    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_564759.1
    • RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain; FUNCTIONS IN: RNA binding, nucleotide binding, zinc ion binding, nucleic acid binding; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 10 growth stages; CONTAINS InterPro DOMAIN/s: 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:AT5G04280.1); Has 964 Blast hits to 960 proteins in 87 species: Archae - 0; Bacteria - 0; Metazoa - 324; Fungi - 6; Plants - 589; Viruses - 3; Other Eukaryotes - 42 (source: NCBI BLink).
    NP_849832.1
    • RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain; FUNCTIONS IN: RNA binding, nucleotide binding, zinc ion binding, nucleic acid binding; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 10 growth stages; CONTAINS InterPro DOMAIN/s: 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:AT5G04280.1); Has 996832 Blast hits to 989721 proteins in 35749 species: Archae - 21265; Bacteria - 589617; Metazoa - 208621; Fungi - 26263; Plants - 58603; Viruses - 68007; Other Eukaryotes - 24456 (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_003070.9 Reference assembly

      Range
      22339809..22342337
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001333904.1 → NP_001322374.1  RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8ATT4

    2. NM_104748.3 → NP_564759.1  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_564759.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O22703
      UniProtKB/TrEMBL
      A0A178WIQ3, A0A5S9WNB5
      Conserved Domains (2) summary
      smart00360
      Location:13 → 85
      RRM; RNA recognition motif
      pfam00098
      Location:117 → 132
      zf-CCHC; Zinc knuckle

    3. NM_179501.1 → NP_849832.1  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_849832.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O22703
      UniProtKB/TrEMBL
      A0A178WIQ3, A0A5S9WNB5
      Conserved Domains (2) summary
      smart00360
      Location:13 → 85
      RRM; RNA recognition motif
      pfam00098
      Location:117 → 132
      zf-CCHC; Zinc knuckle

    4. NM_001333905.1 → NP_001322375.1  RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178WIS2, A0A1P8ATT3, A0A384LPG7
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O22703.1

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