U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    LOC4330574 zinc finger protein CONSTANS-LIKE 9 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4330574, updated on 16-Jul-2024

    Summary

    Go to the top of the page Help
    Gene symbol
    LOC4330574
    Gene description
    zinc finger protein CONSTANS-LIKE 9
    Locus tag
    OSNPB_020724000
    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
    Also known as
    DTH2
    Expression
    Broad expression in leaves before flowering (RPKM 43.0), flowers (RPKM 27.4) 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 LOC4330574 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 2 NC_089036.1 (30586016..30590928)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (30094222..30099174)

    Chromosome 2 - NC_089036.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4330572 Neighboring gene chromatin structure-remodeling complex protein BSH Neighboring gene uncharacterized LOC4330575 Neighboring gene nucleotide-sugar uncharacterized transporter 2 Neighboring gene 26S rRNA (cytosine-C(5))-methyltransferase NOP2B

    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
    • 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. CONSTANS-like 9 (COL9) delays the flowering time in Oryza sativa by repressing the Ehd1 pathway. Liu H, et al. Biochem Biophys Res Commun, 2016 Oct 14. PMID 27620492
    2. Isolation and mapping of a family of putative zinc-finger protein cDNAs from rice. Song J, et al. DNA Res, 1998 Apr 30. PMID 9679197
    3. A bioinformatic and transcriptomic approach to identifying positional candidate genes without fine mapping: an example using rice root-growth QTLs. Norton GJ, et al. Genomics, 2008 Nov. PMID 18755262
    4. 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 protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    zinc finger protein CONSTANS-LIKE 9
    Names
    CONSTANS-like protein Days to heading on chromosome 2
    Os02g0724000
    P0685G12.25
    zinc-finger protein

    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_089036.1 Reference ASM3414082v1 Primary Assembly

      Range
      30586016..30590928
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_066307877.1 → XP_066163974.1  zinc finger protein CONSTANS-LIKE 9 isoform X4

    2. XM_015771941.3 → XP_015627427.1  zinc finger protein CONSTANS-LIKE 9 isoform X3

      UniProtKB/TrEMBL
      M1UFS5, O82118, Q6Z5L3
      Conserved Domains (3) summary
      smart00336
      Location:4 → 47
      BBOX; B-Box-type zinc finger
      cd00021
      Location:47 → 90
      BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
      pfam06203
      Location:372 → 393
      CCT; CCT motif

    3. XM_015771943.3 → XP_015627429.1  zinc finger protein CONSTANS-LIKE 9 isoform X4

      UniProtKB/TrEMBL
      M1UFS5
      Conserved Domains (3) summary
      smart00336
      Location:4 → 47
      BBOX; B-Box-type zinc finger
      cd00021
      Location:47 → 90
      BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
      pfam06203
      Location:371 → 392
      CCT; CCT motif

    4. XM_015771942.3 → XP_015627428.1  zinc finger protein CONSTANS-LIKE 9 isoform X3

      UniProtKB/TrEMBL
      M1UFS5, O82118, Q6Z5L3
      Conserved Domains (3) summary
      smart00336
      Location:4 → 47
      BBOX; B-Box-type zinc finger
      cd00021
      Location:47 → 90
      BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
      pfam06203
      Location:372 → 393
      CCT; CCT motif

    5. XM_066307876.1 → XP_066163973.1  zinc finger protein CONSTANS-LIKE 9 isoform X4

    6. XM_026022873.2 → XP_025878658.1  zinc finger protein CONSTANS-LIKE 9 isoform X2

      UniProtKB/TrEMBL
      B9F2G3
      Conserved Domains (3) summary
      smart00336
      Location:77 → 120
      BBOX; B-Box-type zinc finger
      cd00021
      Location:120 → 163
      BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
      pfam06203
      Location:445 → 466
      CCT; CCT motif

    7. XM_066307875.1 → XP_066163972.1  zinc finger protein CONSTANS-LIKE 9 isoform X1

    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