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Gene : CBF1 A. thaliana

Gene ID  ? AT4G25490
Brief Description  C-repeat/DRE binding factor 1  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? C-repeat/DRE binding factor 1 (CBF1); CONTAINS InterPro DOMAIN/s: DNA-binding, integrase-type (InterPro:IPR016177), Pathogenesis-related transcriptional factor/ERF, DNA-binding (InterPro:IPR001471); BEST Arabidopsis thaliana protein match is: C-repeat/DRE binding factor 2 (TAIR:AT4G25470.1).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? Transcriptional activator that binds to the DRE/CRT regulatory element and induces COR (cold-regulated) gene expression increasing plant freezing tolerance. It encodes a member of the DREB subfamily A-1 of ERF/AP2 transcription factor family (CBF1). The protein contains one AP2 domain. There are six members in this subfamily, including CBF1, CBF2, and CBF3. This gene is involved in response to low temperature and abscisic acid.  Source: TAIR, Jun 30, 2015.
Name  ? C-repeat/DRE binding factor 1
  • synonyms:
  • DREB1B,
  • ATCBF1

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16 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
We explored the regulation of CBF1-3 by the circadian clock. 15728337
Ectopic expression of AtCBF1 was sufficient to significantly increase the freezing tolerance of non-acclimated leaves and stems relative to wild-type plants. 17080948
CBF1 and CBF3, but not CBF2 have a concerted additive effect to induce the whole CBF regulon and the complete development of cold acclimation 18093929
Transgenic expression of CBF1 in 2 Solanum species suggested an endogenous CBFpathway is involved in many of the alterations associated with cold acclimation. 18182016
Data show that transgenic plants that constitutively express CBF1 accumulate less bioactive GA and as a consequence exhibit dwarfism and late flowering, and that DELLAs are components of the CBF1-mediated cold stress response. 18757556
Important evolutionary changes in CBF1, -2, and -3 may have primarily occurred at the level of gene regulation as well as in protein function. 18990244
SOC1 Directly Represses the Expression of CBF1 Genes. 19825833
CBF1 domains bind to a target DNA motif with a universal CG step core recognition and different flanking bases preference 19878300
The PKKPAGR sequence of CBF1 is essential for its transcriptional activity. Deletion of the sequence or mutations within it greatly impaired the ability of CBF1 to induce expression of its target genes. 19948259
plays an important role in protection of PSII and PSI during the chilling stress under low irradiance 20022137
Arabidopsis CBF1 gene provided protection and conferred cold tolerance to transgenic tomato without any phenotypic variation. 21287175
SlERFs may act as intermediate transcription factors between AtCBF1 and pathogenesis-related (PR) genes via SlRAV in tomato, which results in enhanced tolerance to bacterial wilt. 21398258
Studies indicate that DREB1A (CBF3), DREB1B (CBF1) and DREB1C (CBF2) play an important role in increasing stress tolerance. 23271026
A major locus harboring three cold-responsive transcription factor genes CBF1, was identified. 23721132
Jasmonate functions as a critical upstream signal of the ICE-CBF/DREB1 pathway to positively regulate Arabidopsis freezing tolerance. 23933884
Transcriptional regulation of LUX by CBF1 mediates cold input to the circadian clock in Arabidopsis. 24954045


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12 Flanking Regions

Flank size: from most upstream transcription start site, or most downstream transcription stop site

Region Name Flank Size Direction Length Gene Included? Chromosome Location
AT4G25490 0.5kb upstream 0.5kb upstream 1717   true Chr4: 13021780-13023496
AT4G25490 0.5kb upstream 0.5kb upstream 500   false Chr4: 13022997-13023496
AT4G25490 0.5kb downstream 0.5kb downstream 1717   true Chr4: 13021280-13022996
AT4G25490 0.5kb downstream 0.5kb downstream 500   false Chr4: 13021280-13021779
AT4G25490 1.0kb upstream 1.0kb upstream 2217   true Chr4: 13021780-13023996
AT4G25490 1.0kb upstream 1.0kb upstream 1000   false Chr4: 13022997-13023996
AT4G25490 1.0kb downstream 1.0kb downstream 2217   true Chr4: 13020780-13022996
AT4G25490 1.0kb downstream 1.0kb downstream 1000   false Chr4: 13020780-13021779
AT4G25490 3.0kb upstream 3.0kb upstream 4217   true Chr4: 13021780-13025996
AT4G25490 3.0kb upstream 3.0kb upstream 3000   false Chr4: 13022997-13025996
AT4G25490 3.0kb downstream 3.0kb downstream 4217   true Chr4: 13018780-13022996
AT4G25490 3.0kb downstream 3.0kb downstream 3000   false Chr4: 13018780-13021779


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11 Data Sets

Name Description Version
BAR Annotations Lookup Mapping(s) between AGI locus and Affy Probeset identifier 10/08/2013
Genome Annotation Araport11 protein-coding, non-coding and transposable element genes Araport11 (06/2016)
RNA-seq expression Measure of gene expression levels (Transcripts per Million, TPM) quantified by Salmon Araport11 (06/2016)
PubMed to gene mapping Curated associations between publications and NCBI Gene records 8/12/2016
GO Annotation from UniProt GO annotations assigned by UniProt 8/01/2016
PO Annotation from TAIR Literature-based annotations of genes to Plant Ontology (PO) terms 06/30/2015
Swiss-Prot data set High-quality, manually annotated, non-redundant protein sequence database 2016_07
Panther data set PANTHER paralogs from Arabidopsis 11.0
GeneRIF Concise phrase describing gene function and publication associated with NCBI Gene records 8/12/2016
IntAct interactions data set Curated binary and complex protein-protein interactions for Arabidopsis thaliana 8/02/2016
BioGRID interaction data set Curated set of genetic and physical interactions for Arabidopsis thaliana 3.4.139