U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    CIB5 cryptochrome-interacting basic-helix-loop-helix 5 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 839167, updated on 18-Sep-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    CIB5
    Official Full Name
    cryptochrome-interacting basic-helix-loop-helix 5
    Primary source
    TAIR:AT1G26260
    Locus tag
    AT1G26260
    See related
    Araport:AT1G26260
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    cryptochrome-interacting basic-helix-loop-helix 5; F28B23.8; F28B23_8
    Summary
    Encodes CIB5 (cryptochrome-interacting basic-helix-loop-helix). Related to CIB1 (AT4G34530). CIB5 interacts with CRY2 and forms heterodimer with CIB1 in vitro. Regulates flowering time redundantly with CIB1.
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See CIB5 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    9
    Sequence:
    Chromosome: 1; NC_003070.9 (9086804..9089375)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene Proline-rich extensin-like family protein Neighboring gene Proline-rich extensin-like family protein Neighboring gene uncharacterized protein Neighboring gene Phosphatidylinositol 3- and 4-kinase family protein Neighboring gene BSD domain-containing protein Neighboring gene uncharacterized protein

    Genomic regions, transcripts, and products

    Go to the top of the page Help
    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Photoexcited CRY2 interacts with CIB1 to regulate transcription and floral initiation in Arabidopsis. Liu H, et al. Science, 2008 Dec 5. PMID 18988809
    2. Multiple bHLH proteins form heterodimers to mediate CRY2-dependent regulation of flowering-time in Arabidopsis. Liu Y, et al. PLoS Genet, 2013. PMID 24130508, Free PMC Article
    3. A central role of Arabidopsis thaliana ovate family proteins in networking and subcellular localization of 3-aa loop extension homeodomain proteins. Hackbusch J, et al. Proc Natl Acad Sci U S A, 2005 Mar 29. PMID 15781858, Free PMC Article
    4. A user-friendly platform for yeast two-hybrid library screening using next generation sequencing. Erffelinck ML, et al. PLoS One, 2018. PMID 30576311, Free PMC Article
    5. The basic helix-loop-helix transcription factor family in plants: a genome-wide study of protein structure and functional diversity. Heim MA, et al. Mol Biol Evol, 2003 May. PMID 12679534

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help
    NM_001036016.2
    NM_001332707.1
    NM_001332708.1
    NM_001332709.1
    NM_102390.3
    NM_202184.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein dimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within positive regulation of flower development IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of DNA-templated transcription TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in response to blue light IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    cryptochrome-interacting basic-helix-loop-helix 5
    NP_001031093.1
    • cryptochrome-interacting basic-helix-loop-helix 5 (CIB5); FUNCTIONS IN: DNA binding, sequence-specific DNA binding transcription factor activity; INVOLVED IN: positive regulation of flower development, regulation of transcription; LOCATED IN: nucleus; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Helix-loop-helix DNA-binding domain (InterPro:IPR001092), Helix-loop-helix DNA-binding (InterPro:IPR011598); BEST Arabidopsis thaliana protein match is: basic helix-loop-helix (bHLH) DNA-binding superfamily protein (TAIR:AT1G68920.3); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).
    NP_173950.1
    • cryptochrome-interacting basic-helix-loop-helix 5 (CIB5); FUNCTIONS IN: DNA binding, sequence-specific DNA binding transcription factor activity; INVOLVED IN: positive regulation of flower development, regulation of transcription; LOCATED IN: nucleus; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Helix-loop-helix DNA-binding domain (InterPro:IPR001092), Helix-loop-helix DNA-binding (InterPro:IPR011598); BEST Arabidopsis thaliana protein match is: basic helix-loop-helix (bHLH) DNA-binding superfamily protein (TAIR:AT1G68920.3); Has 2014 Blast hits to 2008 proteins in 104 species: Archae - 0; Bacteria - 3; Metazoa - 32; Fungi - 24; Plants - 1947; Viruses - 0; Other Eukaryotes - 8 (source: NCBI BLink).
    NP_973913.1
    • cryptochrome-interacting basic-helix-loop-helix 5 (CIB5); FUNCTIONS IN: DNA binding, sequence-specific DNA binding transcription factor activity; INVOLVED IN: positive regulation of flower development, regulation of transcription; LOCATED IN: nucleus; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Helix-loop-helix DNA-binding domain (InterPro:IPR001092), Helix-loop-helix DNA-binding (InterPro:IPR011598); BEST Arabidopsis thaliana protein match is: basic helix-loop-helix (bHLH) DNA-binding superfamily protein (TAIR:AT1G68920.3); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003070.9 Reference assembly

      Range
      9086804..9089375
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_102390.3 → NP_173950.1  cryptochrome-interacting basic-helix-loop-helix 5 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_173950.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q700E2, Q9C670
      UniProtKB/TrEMBL
      A0A178WLZ9, A0A5S9VWQ4
      Conserved Domains (1) summary
      cd18919
      Location:219 → 304
      bHLH_AtBPE_like; basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana BIG PETAL (BPE) and similar proteins

    2. NM_001332707.1 → NP_001323071.1  cryptochrome-interacting basic-helix-loop-helix 5 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q700E2, Q9C670
      UniProtKB/TrEMBL
      A0A178WLZ9, A0A5S9VWQ4
      Conserved Domains (1) summary
      cd18919
      Location:219 → 304
      bHLH_AtBPE_like; basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana BIG PETAL (BPE) and similar proteins

    3. NM_001332708.1 → NP_001323072.1  cryptochrome-interacting basic-helix-loop-helix 5 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8AVX7, A0A5S9VWQ4

    4. NM_001332709.1 → NP_001323073.1  cryptochrome-interacting basic-helix-loop-helix 5 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q700E2, Q9C670
      UniProtKB/TrEMBL
      A0A178WLZ9, A0A5S9VWQ4
      Conserved Domains (1) summary
      cd18919
      Location:219 → 304
      bHLH_AtBPE_like; basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana BIG PETAL (BPE) and similar proteins

    5. NM_202184.3 → NP_973913.1  cryptochrome-interacting basic-helix-loop-helix 5 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_973913.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q700E2, Q9C670
      UniProtKB/TrEMBL
      A0A178WLZ9, A0A5S9VWQ4
      Conserved Domains (1) summary
      cd18919
      Location:219 → 304
      bHLH_AtBPE_like; basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana BIG PETAL (BPE) and similar proteins

    6. NM_001036016.2 → NP_001031093.1  cryptochrome-interacting basic-helix-loop-helix 5 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001031093.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A5S9VWQ4
      Conserved Domains (2) summary
      smart00353
      Location:184 → 233
      HLH; helix loop helix domain
      pfam05093
      Location:121 → 158
      CIAPIN1; Cytokine-induced anti-apoptosis inhibitor 1, Fe-S biogenesis
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9C670.1

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.