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    LOC4325001 MADS-box transcription factor 2-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4325001, updated on 10-Oct-2024

    Summary

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    Gene symbol
    LOC4325001
    Gene description
    MADS-box transcription factor 2-like
    Locus tag
    OSNPB_010883100
    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
    PI2; MADS; MADS2; NMADS1; OsMADS2; RMADS219; OsJ_04312
    Expression
    Biased expression in flowers (RPKM 179.3), flower buds (RPKM 66.7) and 1 other tissue See more
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    Genomic context

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    See LOC4325001 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (38951488..38954222, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (38321340..38324077, complement)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene protein DMP7 Neighboring gene NAD(P)H-quinone oxidoreductase subunit N, chloroplastic Neighboring gene amino acid permease 4 Neighboring gene probable receptor-like protein kinase At1g11050 Neighboring gene ubinuclein-1 Neighboring gene uncharacterized LOC136354780

    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
    3. 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

    Pathways from PubChem

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    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables protein dimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in positive regulation of transcription by RNA polymerase II 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

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    Preferred Names
    mADS-box transcription factor 2
    Names
    B1065E10.30
    LOC_Os01g66030
    MADS box protein
    MADS-box protein RMADS219
    MADS-box transcription factor 2
    PISTILLATA-like MADS-box transcription factor

    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_001416350.1 → NP_001403279.1  mADS-box transcription factor 2

      Status: VALIDATED

      Source sequence(s)
      AY551924, CI599768
      UniProtKB/Swiss-Prot
      Q0JH52, Q40702, Q6Q9H8, Q7F2L5, Q9AUJ1
      UniProtKB/TrEMBL
      A2WXN3

    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
      38951488..38954222 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015768509.3 → XP_015623995.1  mADS-box transcription factor 2 isoform X1

      UniProtKB/TrEMBL
      M1EC06
      Conserved Domains (2) summary
      cd00265
      Location:2 → 80
      MADS_MEF2_like; MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I ...
      pfam01486
      Location:83 → 163
      K-box; K-box region
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q40702.1 GenPept UniProtKB/Swiss-Prot:Q40702

    Gene LinkOut

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