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    LOC4337575 transcription initiation factor IIA subunit 2-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4337575, updated on 6-Jun-2024

    Summary

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    Gene symbol
    LOC4337575
    Gene description
    transcription initiation factor IIA subunit 2-like
    Locus tag
    OSNPB_050107700
    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
    XA5; TFIIAy
    Expression
    Ubiquitous expression in flower buds (RPKM 77.1), flowers (RPKM 73.5) and 6 other tissues See more
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    Genomic context

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    See LOC4337575 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (436979..443270)

    Chromosome 5 - NC_029260.1Genomic Context describing neighboring genes Neighboring gene ABC transporter D family member 1 Neighboring gene transfer RNA leucine (anticodon UAG) Neighboring gene protein DEHYDRATION-INDUCED 19 homolog 6-like Neighboring gene uncharacterized LOC4337577

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029260.1 Chromosome 5 Reference IRGSP-1.0 Primary Assembly

    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. Rice xa13 recessive resistance to bacterial blight is defeated by induction of the disease susceptibility gene Os-11N3. Antony G, et al. Plant Cell, 2010 Nov. PMID 21098734, Free PMC Article
    2. Xanthomonas TAL effectors hijack host basal transcription factor IIA α and γ subunits for invasion. Ma L, et al. Biochem Biophys Res Commun, 2018 Feb 5. PMID 29331375
    3. 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

    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 RNA polymerase II general transcription initiation factor activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables TBP-class protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in RNA polymerase II preinitiation complex assembly IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in transcription initiation at RNA polymerase II promoter IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of transcription factor TFIIA complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    transcription initiation factor IIA subunit 2
    Names
    General transcription factor IIA subunit 2
    LOC_Os05g01710
    OSJNBa0068N01.8
    TFIIA-gamma
    Transcription initiation factor IIA gamma chain
    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_001402467.1 → NP_001389396.1  transcription initiation factor IIA subunit 2

      Status: VALIDATED

      Source sequence(s)
      AU091425, CF296578, CF297693
      UniProtKB/Swiss-Prot
      A2XZI2, Q0DLD3, Q5SDB6, Q65X27, Q7FPX2, Q94HL5
      UniProtKB/TrEMBL
      A0A075D0F9, A0A075D0S6, A0A2I6HE18, A0A8J8Y791, B7EAK7, B8AWX2, B9FM22

    2. NM_001402468.1 → NP_001389397.1  transcription initiation factor IIA subunit 2

      Status: VALIDATED

      Source sequence(s)
      AU091425, CF295167, CF296578
      UniProtKB/Swiss-Prot
      A2XZI2, Q0DLD3, Q5SDB6, Q65X27, Q7FPX2, Q94HL5
      UniProtKB/TrEMBL
      A0A075D0F9, A0A075D0S6, A0A2I6HE18, A0A8J8Y791, B7EAK7, B8AWX2, B9FM22

    3. NM_001402469.1 → NP_001389398.1  transcription initiation factor IIA subunit 2

      Status: VALIDATED

      Source sequence(s)
      AU091425, CF296578, CF296874
      UniProtKB/Swiss-Prot
      A2XZI2, Q0DLD3, Q5SDB6, Q65X27, Q7FPX2, Q94HL5
      UniProtKB/TrEMBL
      A0A075D0F9, A0A075D0S6, A0A2I6HE18, A0A8J8Y791, B7EAK7, B8AWX2, B9FM22

    RefSeqs of Annotated Genomes: Oryza sativa Japonica Group Annotation Release 102 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference IRGSP-1.0 Primary Assembly

    Genomic

    1. NC_029260.1 Reference IRGSP-1.0 Primary Assembly

      Range
      436979..443270
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015785148.2 → XP_015640634.1  transcription initiation factor IIA subunit 2

      UniProtKB/Swiss-Prot
      Q0DLD3
      UniProtKB/TrEMBL
      B7EAK7
      Conserved Domains (1) summary
      COG5123
      Location:4 → 103
      TOA2; Transcription initiation factor IIA, gamma subunit [Transcription]

    2. XM_015785149.2 → XP_015640635.1  transcription initiation factor IIA subunit 2

      UniProtKB/Swiss-Prot
      Q0DLD3
      UniProtKB/TrEMBL
      B7EAK7
      Conserved Domains (1) summary
      COG5123
      Location:4 → 103
      TOA2; Transcription initiation factor IIA, gamma subunit [Transcription]

    3. XM_015785150.2 → XP_015640636.1  transcription initiation factor IIA subunit 2

      UniProtKB/Swiss-Prot
      Q0DLD3
      UniProtKB/TrEMBL
      B7EAK7
      Conserved Domains (1) summary
      COG5123
      Location:4 → 103
      TOA2; Transcription initiation factor IIA, gamma subunit [Transcription]
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q0DLD3.1 GenPept UniProtKB/Swiss-Prot:Q0DLD3

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