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    LOC4340495 MADS-box transcription factor 55-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4340495, updated on 10-Oct-2024

    Summary

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    Gene symbol
    LOC4340495
    Gene description
    MADS-box transcription factor 55-like
    Locus tag
    OSNPB_060217300
    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
    MADS55; OsMADS55
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    Genomic context

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    See LOC4340495 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (6119674..6130599, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (5952595..5963499, complement)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene peptidyl-prolyl cis-trans isomerase CYP40 Neighboring gene transfer RNA valine (anticodon AAC) Neighboring gene mediator of RNA polymerase II transcription subunit 6 Neighboring gene kinesin-like protein KIN-14L

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Systematic reverse genetic screening of T-DNA tagged genes in rice for functional genomic analyses: MADS-box genes as a test case. Lee S, et al. Plant Cell Physiol, 2003 Dec. PMID 14701936
    2. 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
    3. 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
    4. 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 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 55
    Names
    LOC_Os06g11330
    MADS-box transcription factor 55
    OSJNBb0024N18.23
    putative transcription factor MADS55
    transcription factor MADS55

    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_001421396.1 → NP_001408325.1  mADS-box transcription factor 55

      Status: VALIDATED

      Source sequence(s)
      AK111859, AY345223, CI367542

    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_089040.1 Reference ASM3414082v1 Primary Assembly

      Range
      6119674..6130599 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015786192.3 → XP_015641678.1  mADS-box transcription factor 55 isoform X1

      UniProtKB/TrEMBL
      B8B400
      Conserved Domains (2) summary
      cd00265
      Location:13 → 76
      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:108 → 171
      K-box; K-box region
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q69TG5.2 GenPept UniProtKB/Swiss-Prot:Q69TG5

    Gene LinkOut

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    Research Materials