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    LOC4326924 PH, RCC1 and FYVE domains-containing protein 1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4326924, updated on 1-Aug-2024

    Summary

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    Gene symbol
    LOC4326924
    Gene description
    PH, RCC1 and FYVE domains-containing protein 1
    Locus tag
    OSNPB_010700200
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
    Also known as
    P0047E11.4
    Expression
    Biased expression in flowers (RPKM 5.6) and flower buds (RPKM 3.7) See more
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    Genomic context

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    See LOC4326924 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (29566212..29572251)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (28978006..28983871)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4326922 Neighboring gene bidirectional sugar transporter SWEET2b-like Neighboring gene probable methyltransferase TCM_000336 Neighboring gene flavonoid 3',5'-hydroxylase CYP75B138

    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

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

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

    General protein information

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    Preferred Names
    PH, RCC1 and FYVE domains-containing protein 1
    Names
    Os01g0700200
    P0454A11.23
    zinc finger protein-like

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001409004.1 → NP_001395933.1  PH, RCC1 and FYVE domains-containing protein 1

      Status: VALIDATED

      Source sequence(s)
      AK100961
      UniProtKB/TrEMBL
      A0A0P0V733, B9EZ09, Q0JK30, Q5N8I7

    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_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      29566212..29572251
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_066306837.1 → XP_066162934.1  PH, RCC1 and FYVE domains-containing protein 1 isoform X3

      UniProtKB/TrEMBL
      B9EZ09

    2. XM_015763910.3 → XP_015619396.1  PH, RCC1 and FYVE domains-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      B9EZ09
      Conserved Domains (5) summary
      smart00064
      Location:605 → 672
      FYVE; Protein present in Fab1, YOTB, Vac1, and EEA1
      COG5184
      Location:264 → 608
      ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
      cd13365
      Location:2 → 120
      PH_PLC_plant-like; Plant-like Phospholipase C (PLC) pleckstrin homology (PH) domain
      pfam08381
      Location:972 → 1027
      BRX; Transcription factor regulating root and shoot growth via Pin3
      pfam15742
      Location:790 → 889
      DUF4686; Domain of unknown function (DUF4686)

    3. XM_026020299.2 → XP_025876084.1  PH, RCC1 and FYVE domains-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      B9EZ09
      Conserved Domains (5) summary
      smart00064
      Location:605 → 672
      FYVE; Protein present in Fab1, YOTB, Vac1, and EEA1
      COG5184
      Location:264 → 608
      ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
      cd13365
      Location:2 → 120
      PH_PLC_plant-like; Plant-like Phospholipase C (PLC) pleckstrin homology (PH) domain
      pfam08381
      Location:972 → 1027
      BRX; Transcription factor regulating root and shoot growth via Pin3
      pfam15742
      Location:790 → 889
      DUF4686; Domain of unknown function (DUF4686)

    4. XM_066306834.1 → XP_066162931.1  PH, RCC1 and FYVE domains-containing protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A0P0V733, B9EZ09, Q0JK30, Q5N8I7

    5. XM_066306836.1 → XP_066162933.1  PH, RCC1 and FYVE domains-containing protein 1 isoform X3

      UniProtKB/TrEMBL
      B9EZ09

    6. XM_015763901.3 → XP_015619387.1  PH, RCC1 and FYVE domains-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      B9EZ09
      Conserved Domains (5) summary
      smart00064
      Location:605 → 672
      FYVE; Protein present in Fab1, YOTB, Vac1, and EEA1
      COG5184
      Location:264 → 608
      ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
      cd13365
      Location:2 → 120
      PH_PLC_plant-like; Plant-like Phospholipase C (PLC) pleckstrin homology (PH) domain
      pfam08381
      Location:972 → 1027
      BRX; Transcription factor regulating root and shoot growth via Pin3
      pfam15742
      Location:790 → 889
      DUF4686; Domain of unknown function (DUF4686)

    7. XM_066306832.1 → XP_066162929.1  PH, RCC1 and FYVE domains-containing protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A0P0V733, B9EZ09, Q0JK30, Q5N8I7
    Nucleotide Protein
    Heading Accession and Version

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