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    LOC4324753 RNA polymerase II C-terminal domain phosphatase-like 2 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4324753, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4324753
    Gene description
    RNA polymerase II C-terminal domain phosphatase-like 2
    Locus tag
    OSNPB_010857000
    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
    OJ1402_H07.29-1; OJ1402_H07.29-2
    Expression
    Ubiquitous expression in roots after flowering (RPKM 20.0), leaves before flowering (RPKM 18.8) and 6 other tissues See more
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    Genomic context

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    See LOC4324753 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (37650039..37658596, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (37022953..37031686, complement)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene nuclear pore complex protein NUP62 Neighboring gene pleckstrin homology domain-containing protein 1 Neighboring gene uncharacterized LOC4324752 Neighboring gene cis-prenyltransferase 4, chloroplastic Neighboring gene probable 3-deoxy-D-manno-octulosonic acid transferase, mitochondrial

    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. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, 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 RNA polymerase II CTD heptapeptide repeat phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    RNA polymerase II C-terminal domain phosphatase-like 2
    Names
    C-terminal domain phosphatase-like protein
    Os01g0857000
    P0683F02.6-1
    P0683F02.6-2

    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_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      37650039..37658596 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_026022341.2 → XP_025878126.1  RNA polymerase II C-terminal domain phosphatase-like 2 isoform X3

      UniProtKB/TrEMBL
      B8ACG8
      Conserved Domains (3) summary
      smart00358
      Location:654 → 719
      DSRM; Double-stranded RNA binding motif
      pfam00035
      Location:527 → 589
      dsrm; Double-stranded RNA binding motif
      cl21460
      Location:264 → 380
      HAD_like; Haloacid Dehalogenase-like Hydrolases

    2. XM_026022340.2 → XP_025878125.1  RNA polymerase II C-terminal domain phosphatase-like 2 isoform X2

      UniProtKB/TrEMBL
      B8ACG8
      Conserved Domains (3) summary
      smart00358
      Location:654 → 719
      DSRM; Double-stranded RNA binding motif
      pfam00035
      Location:527 → 589
      dsrm; Double-stranded RNA binding motif
      cl21460
      Location:264 → 380
      HAD_like; Haloacid Dehalogenase-like Hydrolases

    3. XM_015764787.3 → XP_015620273.1  RNA polymerase II C-terminal domain phosphatase-like 2 isoform X1

      UniProtKB/TrEMBL
      B8ACG8, B9EUS0, Q5N890, Q5N904
      Conserved Domains (3) summary
      smart00358
      Location:654 → 719
      DSRM; Double-stranded RNA binding motif
      pfam00035
      Location:540 → 589
      dsrm; Double-stranded RNA binding motif
      cl21460
      Location:264 → 380
      HAD_like; Haloacid Dehalogenase-like Hydrolases

    4. XM_015764795.3 → XP_015620281.1  RNA polymerase II C-terminal domain phosphatase-like 2 isoform X3

      UniProtKB/TrEMBL
      B8ACG8
      Conserved Domains (3) summary
      smart00358
      Location:654 → 719
      DSRM; Double-stranded RNA binding motif
      pfam00035
      Location:527 → 589
      dsrm; Double-stranded RNA binding motif
      cl21460
      Location:264 → 380
      HAD_like; Haloacid Dehalogenase-like Hydrolases

    RNA

    1. XR_010737927.1 RNA Sequence

    2. XR_003240234.2 RNA Sequence

    3. XR_003240235.2 RNA Sequence

    4. XR_003240236.2 RNA Sequence

    5. XR_010737924.1 RNA Sequence

    6. XR_001542238.2 RNA Sequence

    7. XR_010737921.1 RNA Sequence

    8. XR_010737923.1 RNA Sequence

    9. XR_010737922.1 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version

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