U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    LOC4345664 polypyrimidine tract-binding protein homolog 1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4345664, updated on 12-Jul-2024

    Summary

    Go to the top of the page Help
    Gene symbol
    LOC4345664
    Gene description
    polypyrimidine tract-binding protein homolog 1
    Locus tag
    OSNPB_080436000
    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 leaves before flowering (RPKM 35.6), roots after flowering (RPKM 26.4) and 6 other tissues See more
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See LOC4345664 in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 8 NC_089042.1 (21311255..21316970, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 8 NC_029263.1 (21173460..21179196, complement)

    Chromosome 8 - NC_089042.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4345662 Neighboring gene chlorophyll a-b binding protein P4, chloroplastic Neighboring gene probable apyrase 6 Neighboring gene uncharacterized LOC4345666

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    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

    Go to the top of the page Help

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables mRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    polypyrimidine tract-binding protein homolog 1
    Names
    Os08g0436000
    P0413H11.37
    putative polypyrimidine tract-binding protein homolog

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_089042.1 Reference ASM3414082v1 Primary Assembly

      Range
      21311255..21316970 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015794240.2 → XP_015649726.1  polypyrimidine tract-binding protein homolog 1 isoform X2

      Conserved Domains (3) summary
      cd12686
      Location:15 → 95
      RRM1_PTBPH1_PTBPH2; RNA recognition motif 1 in plant polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2)
      cd12691
      Location:109 → 203
      RRM2_PTBPH1_PTBPH2; RNA recognition motif 2 in plant polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2)
      cl17169
      Location:242 → 313
      RRM_SF; RNA recognition motif (RRM) superfamily

    2. XM_015794239.2 → XP_015649725.1  polypyrimidine tract-binding protein homolog 1 isoform X1

      UniProtKB/TrEMBL
      A0A0P0XG05, B8BB16, Q0J5G6, Q6YWJ5
      Conserved Domains (3) summary
      cd12691
      Location:109 → 203
      RRM2_PTBPH1_PTBPH2; RNA recognition motif 2 (RRM2) found in plant polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2)
      cd12686
      Location:15 → 95
      RRM1_PTBPH1_PTBPH2; RNA recognition motif 1 (RRM1) found in plant polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2)
      cd12690
      Location:242 → 338
      RRM3_PTBPH1_PTBPH2; RNA recognition motif 3 (RRM3) found in plant polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2)

    RNA

    1. XR_010734423.1 RNA Sequence

    2. XR_010734428.1 RNA Sequence

    3. XR_001548204.2 RNA Sequence

    4. XR_010734427.1 RNA Sequence

    5. XR_010734426.1 RNA Sequence

    6. XR_010734425.1 RNA Sequence

    7. XR_001548202.2 RNA Sequence

    8. XR_010734424.1 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials