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 Rsa1.0_02379.1_g00003.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family bHLH
Protein Properties Length: 94aa    MW: 10660.8 Da    PI: 9.3621
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_02379.1_g00003.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH22.91.6e-0719601454
                             HHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS
                      HLH 14 driNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54
                             d+i + +++Lr+ +P+ + + +s  +s + +L+++++YI++L
  Rsa1.0_02379.1_g00003.1 19 DQITDLISKLRQSIPEiRQNRRSNTVSASKVLQETCNYIRNL 60
                             799*************9977777779999***********98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088810.29560IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474595.5E-81985IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000108.6E-51960IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.108.1E-81963IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009640Biological Processphotomorphogenesis
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0005773Cellular Componentvacuole
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 94 aa     Download sequence    Send to blast
MSSSRRSRQS SSSSRINDDQ ITDLISKLRQ SIPEIRQNRR SNTVSASKVL QETCNYIRNL  60
NKEADDLSDR LSQLLETIDP NSPQAAVIRS LINE
Functional Description ? help Back to Top
Source Description
UniProtAtypical and probable non DNA-binding bHLH transcription factor that integrates multiple signaling pathways to regulate cell elongation and plant development. Regulates light responses by binding and inhibiting the activity of the bHLH transcription factor HFR1, a critical regulator of light signaling and shade avoidance. May have a regulatory role in various aspects of gibberellin-dependent growth and development. {ECO:0000269|PubMed:16527868, ECO:0000269|PubMed:20305124}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_02379.1_g00003.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not induced by exogenous gibberellin. {ECO:0000269|PubMed:16527868}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018467245.12e-58PREDICTED: transcription factor PRE2-like
RefseqXP_018475311.12e-58PREDICTED: transcription factor PRE2-like
RefseqXP_018475312.12e-58PREDICTED: transcription factor PRE2-like
SwissprotQ9LXG56e-47PRE2_ARATH; Transcription factor PRE2
TrEMBLA0A1J3GQ623e-55A0A1J3GQ62_NOCCA; Transcription factor PRE2
STRINGBra006286.1-P8e-48(Brassica rapa)
STRINGBo3g010130.18e-48(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM25928225
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G15160.17e-49BANQUO 2
Publications ? help Back to Top
  1. Jung S, et al.
    Synteny conservation between the Prunus genome and both the present and ancestral Arabidopsis genomes.
    BMC Genomics, 2006. 7: p. 81
    [PMID:16615871]
  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. Mao WT, et al.
    The C-Terminal Sequence and PI motif of the Orchid (Oncidium Gower Ramsey) PISTILLATA (PI) Ortholog Determine its Ability to Bind AP3 Orthologs and Enter the Nucleus to Regulate Downstream Genes Controlling Petal and Stamen Formation.
    Plant Cell Physiol., 2015. 56(11): p. 2079-99
    [PMID:26423960]
  4. Ezer D, et al.
    The G-Box Transcriptional Regulatory Code in Arabidopsis.
    Plant Physiol., 2017. 175(2): p. 628-640
    [PMID:28864470]