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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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