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    LOC4342835 pentatricopeptide repeat-containing protein At3g06920 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4342835, updated on 1-Aug-2024

    Summary

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    Gene symbol
    LOC4342835
    Gene description
    pentatricopeptide repeat-containing protein At3g06920
    Locus tag
    OSNPB_070249100
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
    Expression
    Ubiquitous expression in flower buds (RPKM 7.8), leaves before flowering (RPKM 7.6) and 6 other tissues See more
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    Genomic context

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    See LOC4342835 in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 7 NC_089041.1 (8362457..8366845, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 7 NC_029262.1 (8281896..8286295, complement)

    Chromosome 7 - NC_089041.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4342832 Neighboring gene small nucleolar RNA snoR127 Neighboring gene transfer RNA glutamic acid (anticodon CUC) Neighboring gene vesicle-associated membrane protein 724 Neighboring gene mRNA-decapping enzyme-like protein

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome profiling of various organs at different developmental stages in rice Transcriptome profiling of various organs at different developmental stages in rice
    • Description: Transcriptom profiling in flower buds, flowers, flag leaves and roots sampled before flowering and after flowering, milk grains and mature seeds
    • BioProject: PRJNA243371
    • Publication: PMID 26387578
    • Analysis date: Fri Dec 15 20:02:59 2017

    Bibliography

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    Related articles in PubMed

    1. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Rice Full-Length cDNA Consortium, et al. Science, 2003 Jul 18. PMID 12869764
    2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    pentatricopeptide repeat-containing protein At3g06920
    Names
    Os07g0249100
    P0021G06.106
    P0639B07.35
    putative pentatricopeptide (PPR) repeat-containing protein

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_034140825.1-RS_2024_06

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference ASM3414082v1 Primary Assembly

    Genomic

    1. NC_089041.1 Reference ASM3414082v1 Primary Assembly

      Range
      8362457..8366845 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015792238.3 → XP_015647724.1  pentatricopeptide repeat-containing protein At3g06920

      UniProtKB/TrEMBL
      A0A0P0X451, Q7XHS8
      Conserved Domains (6) summary
      smart01043
      Location:124 → 235
      BTAD; Bacterial transcriptional activator domain
      PLN03218
      Location:321 → 781
      PLN03218; maturation of RBCL 1; Provisional
      TIGR00756
      Location:285 → 317
      PPR; pentatricopeptide repeat domain (PPR motif)
      sd00004
      Location:600 → 627
      PPR; PPR repeat [structural motif]
      pfam13812
      Location:201 → 261
      PPR_3; Pentatricopeptide repeat domain
      pfam13041
      Location:247 → 296
      PPR_2; PPR repeat family

    2. XM_066312559.1 → XP_066168656.1  pentatricopeptide repeat-containing protein At3g06920

      UniProtKB/TrEMBL
      A0A0P0X451, Q7XHS8

    3. XM_066312558.1 → XP_066168655.1  pentatricopeptide repeat-containing protein At3g06920

      UniProtKB/TrEMBL
      A0A0P0X451, Q7XHS8

    4. XM_015792239.3 → XP_015647725.1  pentatricopeptide repeat-containing protein At3g06920

      UniProtKB/TrEMBL
      A0A0P0X451, Q7XHS8
      Conserved Domains (6) summary
      smart01043
      Location:124 → 235
      BTAD; Bacterial transcriptional activator domain
      PLN03218
      Location:321 → 781
      PLN03218; maturation of RBCL 1; Provisional
      TIGR00756
      Location:285 → 317
      PPR; pentatricopeptide repeat domain (PPR motif)
      sd00004
      Location:600 → 627
      PPR; PPR repeat [structural motif]
      pfam13812
      Location:201 → 261
      PPR_3; Pentatricopeptide repeat domain
      pfam13041
      Location:247 → 296
      PPR_2; PPR repeat family

    5. XM_015792241.3 → XP_015647727.1  pentatricopeptide repeat-containing protein At3g06920

      UniProtKB/TrEMBL
      A0A0P0X451, Q7XHS8
      Conserved Domains (6) summary
      smart01043
      Location:124 → 235
      BTAD; Bacterial transcriptional activator domain
      PLN03218
      Location:321 → 781
      PLN03218; maturation of RBCL 1; Provisional
      TIGR00756
      Location:285 → 317
      PPR; pentatricopeptide repeat domain (PPR motif)
      sd00004
      Location:600 → 627
      PPR; PPR repeat [structural motif]
      pfam13812
      Location:201 → 261
      PPR_3; Pentatricopeptide repeat domain
      pfam13041
      Location:247 → 296
      PPR_2; PPR repeat family

    6. XM_066312561.1 → XP_066168658.1  pentatricopeptide repeat-containing protein At3g06920

      UniProtKB/TrEMBL
      A0A0P0X451, Q7XHS8

    7. XM_015792240.3 → XP_015647726.1  pentatricopeptide repeat-containing protein At3g06920

      UniProtKB/TrEMBL
      A0A0P0X451, Q7XHS8
      Conserved Domains (6) summary
      smart01043
      Location:124 → 235
      BTAD; Bacterial transcriptional activator domain
      PLN03218
      Location:321 → 781
      PLN03218; maturation of RBCL 1; Provisional
      TIGR00756
      Location:285 → 317
      PPR; pentatricopeptide repeat domain (PPR motif)
      sd00004
      Location:600 → 627
      PPR; PPR repeat [structural motif]
      pfam13812
      Location:201 → 261
      PPR_3; Pentatricopeptide repeat domain
      pfam13041
      Location:247 → 296
      PPR_2; PPR repeat family

    8. XM_066312560.1 → XP_066168657.1  pentatricopeptide repeat-containing protein At3g06920

      UniProtKB/TrEMBL
      A0A0P0X451, Q7XHS8

    9. XM_015792236.3 → XP_015647722.1  pentatricopeptide repeat-containing protein At3g06920

      UniProtKB/TrEMBL
      A0A0P0X451, Q7XHS8
      Conserved Domains (6) summary
      smart01043
      Location:124 → 235
      BTAD; Bacterial transcriptional activator domain
      PLN03218
      Location:321 → 781
      PLN03218; maturation of RBCL 1; Provisional
      TIGR00756
      Location:285 → 317
      PPR; pentatricopeptide repeat domain (PPR motif)
      sd00004
      Location:600 → 627
      PPR; PPR repeat [structural motif]
      pfam13812
      Location:201 → 261
      PPR_3; Pentatricopeptide repeat domain
      pfam13041
      Location:247 → 296
      PPR_2; PPR repeat family
    Nucleotide Protein
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