PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_013594159.1
Organism
Brassica oleracea
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family bHLH
Protein Properties Length: 362aa    MW: 40348.7 Da    PI: 8.0347
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013594159.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH48.41.7e-15171216555
                     HHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
             HLH   5 hnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                     hne ErrRR+riN+++ +L++llP+a      K +K++iL  ++e++k+Lq
  XP_013594159.1 171 HNESERRRRHRINQRMRTLQKLLPTA-----SKADKVSILDDVIEHLKQLQ 216
                     *************************9.....7******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF474591.31E-17163234IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088816.939166215IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.103.2E-16171226IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000837.44E-9171220No hitNo description
PfamPF000109.2E-13171216IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.9E-16172221IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009704Biological Processde-etiolation
GO:0016607Cellular Componentnuclear speck
GO:0003690Molecular Functiondouble-stranded DNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 362 aa     Download sequence    Send to blast
MSNYGVKELT WENGQLTVHG LGEGVEPTTA SANLLWTQAL NGCETLESVV HQAALQPNKL  60
QSQNGRDHNN SESKDGSCSR KRGYPQEMDC WFSPQEESHR VGRHSVTASA SGTNMSWASF  120
ESGRSLKTAR TGDRDYLFSG SETQETEGDE QETRGEAGRS NGRRGRAAAI HNESERRRRH  180
RINQRMRTLQ KLLPTASKAD KVSILDDVIE HLKQLQAQVQ FMSLRANLPQ QMMMPQSVLS  240
IQHQQQQHQQ QQQQQQQQQQ QQFQMSLLAT MARMGMGGGG NAAYGGLVPP PPPPMIPPMD  300
NRDCINASSA SLTDPYSAFL AQTMNMDLYN KMAAAIYRQQ SDQTTKVNTS MPSSSSNHEK  360
RD
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Barely detectable in dark-grown seedlings. Induced after 2 hours of light exposure.
UniprotTISSUE SPECIFICITY: Expressed in flowers. {ECO:0000269|PubMed:12679534}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor acting negatively in the phytochrome B signaling pathway under prolonged red light. Regulates PHYB abundance at the post-transcriptional level, possibly via the ubiquitin-proteasome pathway. May regulate the expression of a subset of genes by binding to the G-box motif. {ECO:0000269|PubMed:15486100, ECO:0000269|PubMed:18252845}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00571DAPTransfer from AT5G61270Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013594159.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By red light. Stable upon light exposure.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3527340.0AK352734.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-03-L18.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013594159.10.0PREDICTED: transcription factor PIF7
SwissprotQ570R70.0PIF7_ARATH; Transcription factor PIF7
TrEMBLA0A0D3DDJ60.0A0A0D3DDJ6_BRAOL; Uncharacterized protein
STRINGBo7g098470.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM141231822
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G61270.11e-150phytochrome-interacting factor7
Publications ? help Back to Top
  1. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. de Wit M,Ljung K,Fankhauser C
    Contrasting growth responses in lamina and petiole during neighbor detection depend on differential auxin responsiveness rather than different auxin levels.
    New Phytol., 2015. 208(1): p. 198-209
    [PMID:25963518]
  4. Bou-Torrent J, et al.
    Regulation of Carotenoid Biosynthesis by Shade Relies on Specific Subsets of Antagonistic Transcription Factors and Cofactors.
    Plant Physiol., 2015. 169(3): p. 1584-94
    [PMID:26082398]
  5. Mizuno T,Oka H,Yoshimura F,Ishida K,Yamashino T
    Insight into the mechanism of end-of-day far-red light (EODFR)-induced shade avoidance responses in Arabidopsis thaliana.
    Biosci. Biotechnol. Biochem., 2015. 79(12): p. 1987-94
    [PMID:26193333]
  6. Paik I,Kathare PK,Kim JI,Huq E
    Expanding Roles of PIFs in Signal Integration from Multiple Processes.
    Mol Plant, 2017. 10(8): p. 1035-1046
    [PMID:28711729]
  7. Peng M, et al.
    Linking PHYTOCHROME-INTERACTING FACTOR to Histone Modification in Plant Shade Avoidance.
    Plant Physiol., 2018. 176(2): p. 1341-1351
    [PMID:29187567]
  8. Huang X, et al.
    Shade-induced nuclear localization of PIF7 is regulated by phosphorylation and 14-3-3 proteins in Arabidopsis.
    Elife, 2019.
    [PMID:29926790]