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Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain-containing protein [ Arabidopsis thaliana (thale cress) ]

Gene ID: 841886, updated on 14-Nov-2024

Summary

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Official Full Name
Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain-containing protein
Primary source
TAIR:AT1G54440
Locus tag
AT1G54440
See related
Araport:AT1G54440
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
F20D21.26; F20D21_26
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Genomic context

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Location:
chromosome: 1
Exon count:
14
Sequence:
Chromosome: 1; NC_003070.9 (20322964..20328238)

Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene pseudo Neighboring gene ncRNA Neighboring gene Protein of unknown function (PD694200) Neighboring gene Calcium-binding EF-hand family 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. An Rrp6-like protein positively regulates noncoding RNA levels and DNA methylation in Arabidopsis. Zhang H, et al. Mol Cell, 2014 May 8. PMID 24726328, Free PMC Article
  2. AtRRP6L1, a homolog of conserved yeast Exosomal Rrp6p, plays an important role in transcriptional gene silencing in arabidopsis. Hsu YF, et al. Mol Plant, 2014 Sep. PMID 24719467
  3. Arabidopsis RRP6L1 and RRP6L2 function in FLOWERING LOCUS C silencing via regulation of antisense RNA synthesis. Shin JH, et al. PLoS Genet, 2014 Sep. PMID 25211139, Free PMC Article
  4. Degradation of a polyadenylated rRNA maturation by-product involves one of the three RRP6-like proteins in Arabidopsis thaliana. Lange H, et al. Mol Cell Biol, 2008 May. PMID 18285452, Free PMC Article
  5. Proteome-wide screens for small ubiquitin-like modifier (SUMO) substrates identify Arabidopsis proteins implicated in diverse biological processes. Elrouby N, et al. Proc Natl Acad Sci U S A, 2010 Oct 5. PMID 20855607, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. AtRRP6L1 plays an important role in transcriptional gene silencing in Arabidopsis. [AtRRP6L1]
    Title: AtRRP6L1, a homolog of conserved yeast Exosomal Rrp6p, plays an important role in transcriptional gene silencing in arabidopsis.
  2. AtRRP6L1 functions in epigenetic regulation by helping with the retention of noncoding RNAs in normal cells.
    Title: An Rrp6-like protein positively regulates noncoding RNA levels and DNA methylation 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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NM_001198293.1
NM_001333649.1
NM_104322.5

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables 3'-5'-RNA exonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables 3'-5'-RNA exonuclease activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
  
enables single-stranded RNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within DNA methylation-dependent constitutive heterochromatin formation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within RNA localization to chromatin IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within gene silencing by siRNA-directed DNA methylation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in gene silencing by siRNA-directed DNA methylation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within positive regulation of siRNA processing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase V IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in nucleolus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm 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
Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain-containing protein
NP_001185222.1
  • Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain; FUNCTIONS IN: 3'-5' exonuclease activity, nucleic acid binding; INVOLVED IN: nucleobase, nucleoside, nucleotide and nucleic acid metabolic process; LOCATED IN: intracellular; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Polynucleotidyl transferase, ribonuclease H fold (InterPro:IPR012337), 3'-5' exonuclease (InterPro:IPR002562), Helicase/RNase D C-terminal, HRDC domain (InterPro:IPR002121); BEST Arabidopsis thaliana protein match is: Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain (TAIR:AT5G35910.1).
NP_175846.3
  • Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain; FUNCTIONS IN: 3'-5' exonuclease activity, nucleic acid binding; INVOLVED IN: nucleobase, nucleoside, nucleotide and nucleic acid metabolic process; LOCATED IN: intracellular; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Polynucleotidyl transferase, ribonuclease H fold (InterPro:IPR012337), Helicase/RNase D C-terminal, HRDC domain (InterPro:IPR002121), 3'-5' exonuclease (InterPro:IPR002562); BEST Arabidopsis thaliana protein match is: Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain (TAIR:AT5G35910.1); Has 4852 Blast hits to 4794 proteins in 1324 species: Archae - 0; Bacteria - 2587; Metazoa - 382; Fungi - 243; Plants - 209; Viruses - 1; Other Eukaryotes - 1430 (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
    20322964..20328238
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001333647.1 → NP_001323051.1  Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain-containing protein [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A1P8AVS7, A0A5S9WPP9

  2. NM_001333648.1 → NP_001323053.1  Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain-containing protein [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A1P8AVX1, A0A5S9WPP9

  3. NM_104322.5 → NP_175846.3  Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain-containing protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_175846.3

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q0WMR6, Q0WVE8, Q9SLI9
    UniProtKB/TrEMBL
    A0A178W683, A0A5S9WPP9
    Conserved Domains (2) summary
    cd06147
    Location:111 → 303
    Rrp6p_like_exo; DEDDy 3'-5' exonuclease domain of yeast Rrp6p, human polymyositis/scleroderma autoantigen 100kDa, and similar proteins
    pfam00570
    Location:337 → 404
    HRDC; HRDC domain

  4. NM_001198293.1 → NP_001185222.1  Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain-containing protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_001185222.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A5S9WPP9, F4HWX0
    Conserved Domains (2) summary
    cd06147
    Location:111 → 303
    Rrp6p_like_exo; DEDDy 3'-5' exonuclease domain of yeast Rrp6p, human polymyositis/scleroderma autoantigen 100kDa, and similar proteins
    pfam00570
    Location:337 → 404
    HRDC; HRDC domain

  5. NM_001333649.1 → NP_001323052.1  Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain-containing protein [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A1P8AVW8, A0A5S9WPP9
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q0WVE8.1

Gene LinkOut

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