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    LOC4328394 BEACH domain-containing protein B [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4328394, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4328394
    Gene description
    BEACH domain-containing protein B
    Locus tag
    OSNPB_020162733
    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
    Also known as
    OJ9003_G05.37
    Expression
    Ubiquitous expression in roots after flowering (RPKM 20.9), leaves after flowering (RPKM 15.9) and 6 other tissues See more
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    Genomic context

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    See LOC4328394 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    41
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 2 NC_089036.1 (3371277..3394960, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (3362820..3386490, complement)

    Chromosome 2 - NC_089036.1Genomic Context describing neighboring genes Neighboring gene early nodulin-like protein 18 Neighboring gene small ribosomal subunit protein uS11z Neighboring gene uncharacterized LOC4328393 Neighboring gene uncharacterized LOC4328397 Neighboring gene uncharacterized LOC4328398

    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
    • 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 protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    BEACH domain-containing protein B
    Names
    Os02g0162733
    Os02g0162766
    putative LvsC

    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_089036.1 Reference ASM3414082v1 Primary Assembly

      Range
      3371277..3394960 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015769745.3 → XP_015625231.1  BEACH domain-containing protein B isoform X2

      UniProtKB/TrEMBL
      B9F362
      Conserved Domains (7) summary
      cd01201
      Location:2400 → 2547
      PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins
      sd00039
      Location:2963 → 3000
      7WD40; WD40 repeat [structural motif]
      pfam02138
      Location:2583 → 2858
      Beach; Beige/BEACH domain
      pfam15787
      Location:1335 → 1595
      DUF4704; Domain of unknown function (DUF4704)
      pfam16057
      Location:2242 → 2298
      DUF4800; Domain of unknown function (DUF4800)
      cl22861
      Location:1107 → 1261
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
      cl29593
      Location:2964 → 3222
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    2. XM_015769746.3 → XP_015625232.1  BEACH domain-containing protein B isoform X3

      UniProtKB/TrEMBL
      B9F362
      Conserved Domains (8) summary
      COG2319
      Location:2865 → 3208
      WD40; WD40 repeat [General function prediction only]
      cd01201
      Location:2373 → 2520
      PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins
      pfam02138
      Location:2556 → 2831
      Beach; Beige/BEACH domain
      pfam15787
      Location:1332 → 1601
      DUF4704; Domain of unknown function (DUF4704)
      pfam16057
      Location:2222 → 2271
      DUF4800; Domain of unknown function (DUF4800)
      sd00039
      Location:2936 → 2973
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:2937 → 3195
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      cl22861
      Location:1094 → 1262
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

    3. XM_015769744.3 → XP_015625230.1  BEACH domain-containing protein B isoform X1

      UniProtKB/TrEMBL
      B9F362
      Conserved Domains (7) summary
      cd01201
      Location:2401 → 2548
      PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins
      sd00039
      Location:2964 → 3001
      7WD40; WD40 repeat [structural motif]
      pfam02138
      Location:2584 → 2859
      Beach; Beige/BEACH domain
      pfam15787
      Location:1336 → 1596
      DUF4704; Domain of unknown function (DUF4704)
      pfam16057
      Location:2243 → 2299
      DUF4800; Domain of unknown function (DUF4800)
      cl22861
      Location:1108 → 1262
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
      cl29593
      Location:2965 → 3223
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    4. XM_066307374.1 → XP_066163471.1  BEACH domain-containing protein B isoform X1

    Nucleotide Protein
    Heading Accession and Version

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