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glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein [ Arabidopsis thaliana (thale cress) ]

Gene ID: 817877, updated on 18-Sep-2024

Summary

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Official Full Name
glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein
Primary source
TAIR:AT2G33160
Locus tag
AT2G33160
See related
Araport:AT2G33160
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
F25I18.10; F25I18_10; NIMNA (Sanskrit for '''sunken'' or ''low''); NMA
Summary
Gene structure annotation for AT2G33160.1 is inaccurate in TAIR10, see PMID:23709666 and Comments field on the locus page for updated annotation.
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Genomic context

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Location:
chromosome: 2
Exon count:
3
Sequence:
Chromosome: 2; NC_003071.7 (14053404..14056246)

Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene tRNA-Met Neighboring gene peroxisomal 3-ketoacyl-CoA thiolase 3 Neighboring gene Leucine-rich repeat receptor-like protein kinase family protein Neighboring gene uncharacterized protein Neighboring gene uncharacterized protein

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003071.7

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Suspensor length determines developmental progression of the embryo in Arabidopsis. Babu Y, et al. Plant Physiol, 2013 Jul. PMID 23709666, Free PMC Article
  2. Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. Lin X, et al. Nature, 1999 Dec 16. PMID 10617197

GeneRIFs: Gene References Into Functions

General gene information

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NM_128875.1

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables RNA-DNA hybrid ribonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables polygalacturonase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in carbohydrate metabolic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within embryo development ending in seed dormancy IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within suspensor development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within zygote elongation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in extracellular region ISM
Inferred from Sequence Model
more info
  
located_in plant-type cell wall IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein
NP_180874.1
  • glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein; FUNCTIONS IN: polygalacturonase activity, nucleic acid binding; INVOLVED IN: carbohydrate metabolic process; LOCATED IN: endomembrane system; CONTAINS InterPro DOMAIN/s: Pectin lyase fold/virulence factor (InterPro:IPR011050), Polynucleotidyl transferase, ribonuclease H fold (InterPro:IPR012337), Pectin lyase fold (InterPro:IPR012334), Glycoside hydrolase, family 28 (InterPro:IPR000743), Parallel beta-helix repeat (InterPro:IPR006626); BEST Arabidopsis thaliana protein match is: Pectin lyase-like superfamily protein (TAIR:AT1G43080.1); Has 4055 Blast hits to 4034 proteins in 453 species: Archae - 8; Bacteria - 853; Metazoa - 14; Fungi - 1250; Plants - 1822; Viruses - 0; Other Eukaryotes - 108 (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_003071.7 Reference assembly

    Range
    14053404..14056246
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_128875.1 → NP_180874.1  glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_180874.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A5S9X3G3, A0A654EZU1, O49319
    Conserved Domains (2) summary
    pfam13456
    Location:514 → 633
    RVT_3; Reverse transcriptase-like
    cl19188
    Location:1 → 402
    PL-6; Polysaccharide Lyase Family 6
Nucleotide Protein
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