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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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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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