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    IRX6 COBRA-like extracellular glycosyl-phosphatidyl inositol-anchored protein family [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 831417, updated on 18-Sep-2024

    Summary

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    Official Symbol
    IRX6
    Official Full Name
    COBRA-like extracellular glycosyl-phosphatidyl inositol-anchored protein family
    Primary source
    TAIR:AT5G15630
    Locus tag
    AT5G15630
    See related
    Araport:AT5G15630
    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
    COBL4; COBRA-LIKE4; F14F8.10; F14F8_10; IRREGULAR XYLEM 6
    Summary
    Encodes a member of the COBRA family, similar to phytochelatin synthetase. Involved in secondary cell wall biosynthesis. Mutants make smaller plants with reduced levels of cellulose and cell wall sugars.
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    Genomic context

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    See IRX6 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    4
    Sequence:
    Chromosome: 5; NC_003076.8 (5084524..5086811)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene Proteasome component (PCI) domain protein Neighboring gene F-box/RNI-like superfamily protein Neighboring gene Mitochondrial substrate carrier family protein Neighboring gene reversibly glycosylated polypeptide 2

    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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    Related articles in PubMed

    1. Characterization of the early response of Arabidopsis to Alternaria brassicicola infection using expression profiling. van Wees SC, et al. Plant Physiol, 2003 Jun. PMID 12805591, Free PMC Article
    2. Identification of novel genes in Arabidopsis involved in secondary cell wall formation using expression profiling and reverse genetics. Brown DM, et al. Plant Cell, 2005 Aug. PMID 15980264, Free PMC Article
    3. The COBRA family of putative GPI-anchored proteins in Arabidopsis. A new fellowship in expansion. Roudier F, et al. Plant Physiol, 2002 Oct. PMID 12376623, Free PMC Article
    4. An integrative approach to the identification of Arabidopsis and rice genes involved in xylan and secondary wall development. Oikawa A, et al. PLoS One, 2010 Nov 23. PMID 21124849, Free PMC Article
    5. Prediction of glycosylphosphatidylinositol-anchored proteins in Arabidopsis. A genomic analysis. Borner GH, et al. Plant Physiol, 2002 Jun. PMID 12068095, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    NM_001343411.1
    NM_001343412.1
    NM_001343413.1
    NM_001343414.1
    NM_121567.5

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in cellulose microfibril organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within plant-type secondary cell wall biogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane TAS
    Traceable Author Statement
    more info
    		 PubMed 
    located_in plant-type vacuole HDA PubMed 
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    COBRA-like extracellular glycosyl-phosphatidyl inositol-anchored protein family
    NP_197067.2
    • IRREGULAR XYLEM 6 (IRX6); INVOLVED IN: secondary cell wall biogenesis; LOCATED IN: plasma membrane, anchored to membrane; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 12 growth stages; CONTAINS InterPro DOMAIN/s: Glycosyl-phosphatidyl inositol-anchored, plant (InterPro:IPR006918), COBRA-like (InterPro:IPR017391); BEST Arabidopsis thaliana protein match is: COBRA-like extracellular glycosyl-phosphatidyl inositol-anchored protein family (TAIR:AT5G60920.1); Has 379 Blast hits to 368 proteins in 30 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 379; Viruses - 0; Other Eukaryotes - 0 (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
      5084524..5086811
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_121567.5 → NP_197067.2  COBRA-like extracellular glycosyl-phosphatidyl inositol-anchored protein family [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_197067.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q6ICX3, Q9LFW3
      UniProtKB/TrEMBL
      A0A5S9Y4Z5, A0A654G1B3
      Conserved Domains (1) summary
      pfam04833
      Location:44 → 207
      COBRA; COBRA-like protein

    2. NM_001343411.1 → NP_001331539.1  COBRA-like extracellular glycosyl-phosphatidyl inositol-anchored protein family [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8BE86

    3. NM_001343412.1 → NP_001331538.1  COBRA-like extracellular glycosyl-phosphatidyl inositol-anchored protein family [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UK60, A0A1P8BE63, A0A384LH43
      Conserved Domains (1) summary
      pfam04833
      Location:8 → 171
      COBRA; COBRA-like protein

    4. NM_001343413.1 → NP_001331540.1  COBRA-like extracellular glycosyl-phosphatidyl inositol-anchored protein family [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8BE86

    5. NM_001343414.1 → NP_001331537.1  COBRA-like extracellular glycosyl-phosphatidyl inositol-anchored protein family [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8BE64
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LFW3.2

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