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    LOC4329229 cyclin-T1-2-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4329229, updated on 10-Oct-2024

    Summary

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    Gene symbol
    LOC4329229
    Gene description
    cyclin-T1-2-like
    Locus tag
    OSNPB_020438200
    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
    CYCT1_2; CycT1;2; OsJ_06547; OJ1570_H12.4-1; OJ1570_H12.4-2
    Expression
    Ubiquitous expression in roots after flowering (RPKM 15.4), leaves after flowering (RPKM 14.0) and 6 other tissues See more
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    Genomic context

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    See LOC4329229 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 2 NC_089036.1 (14468519..14475426)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (14011189..14018123)

    Chromosome 2 - NC_089036.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC9272581 Neighboring gene uncharacterized LOC136355218 Neighboring gene uncharacterized LOC107278108 Neighboring gene uncharacterized LOC4329231

    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. Large-scale identification of expressed sequence tags involved in rice and rice blast fungus interaction. Jantasuriyarat C, et al. Plant Physiol, 2005 May. PMID 15888683, Free PMC Article
    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. 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 cyclin-dependent protein serine/threonine kinase activator activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in positive regulation of DNA-templated transcription, elongation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of cyclin/CDK positive transcription elongation factor complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    cyclin-T1-2
    Names
    LOC_Os02g24190
    cyclin K-like
    cyclin T2-like protein

    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_001416587.1 → NP_001403516.1  cyclin-T1-2

      Status: VALIDATED

      Source sequence(s)
      AK102728, CB678578, CF312827, CI556976, CI617756, CI773216
      UniProtKB/Swiss-Prot
      B7F0D1, Q6Z7H3, Q6Z7H4

    2. NM_001416588.1 → NP_001403517.1  cyclin-T1-2

      Status: VALIDATED

      Source sequence(s)
      AK102728, CB678578, CF312827, CI533268, CI556976, CI617756, CI750864, CI773011
      UniProtKB/Swiss-Prot
      B7F0D1, Q6Z7H3, Q6Z7H4

    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_089036.1 Reference ASM3414082v1 Primary Assembly

      Range
      14468519..14475426
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_066307007.1 → XP_066163104.1  cyclin-T1-2 isoform X2

    2. XM_026023449.2 → XP_025879234.1  cyclin-T1-2 isoform X1

      UniProtKB/Swiss-Prot
      B7F0D1, Q6Z7H3, Q6Z7H4
      UniProtKB/TrEMBL
      B8AH65
      Conserved Domains (1) summary
      cl40454
      Location:34 → 157
      CYCLIN_SF; Cyclin box fold superfamily

    3. XM_026023451.2 → XP_025879236.1  cyclin-T1-2 isoform X2

      UniProtKB/TrEMBL
      B8AH65
      Conserved Domains (1) summary
      cl28538
      Location:2 → 160
      CCL1; Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6Z7H3.2 GenPept UniProtKB/Swiss-Prot:Q6Z7H3

    Gene LinkOut

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