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_009131445.1
Organism
Brassica rapa
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: 94aa    MW: 10628.8 Da    PI: 9.3621
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009131445.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH22.12.8e-0719601454
                    HHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS
             HLH 14 driNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54
                    d+i + +++Lr+ +P+ + + +s  +s + +L+++++YI++L
  XP_009131445.1 19 DQITELISKLRQSIPEiRQNRRSNTVSASKVLQETCNYIRNL 60
                    7899************9977777779999***********98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088810.353560IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474593.93E-81685IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.5E-41960IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.107.0E-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
MSSGRRSRQA SSSSRINDDQ ITELISKLRQ SIPEIRQNRR SNTVSASKVL QETCNYIRNL  60
NKEADDLSDR LSQLLETIDP NSPQAAVIRS LINE
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, leaves, stems and flowers. {ECO:0000269|PubMed:16527868}.
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
PlantRegMapXP_009131445.1
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1188871e-105AK118887.1 Arabidopsis thaliana At5g15160 mRNA for unknown protein, complete cds, clone: RAFL21-22-D11.
GenBankBT0054601e-105BT005460.1 Arabidopsis thaliana clone U51275 putative bHLH protein (At5g15160) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009131445.11e-59PREDICTED: transcription factor PRE2-like
RefseqXP_013740167.11e-59transcription factor PRE2-like
SwissprotQ9LXG53e-46PRE2_ARATH; Transcription factor PRE2
TrEMBLA0A397ZSM43e-58A0A397ZSM4_BRACM; Uncharacterized protein
TrEMBLM4CPZ73e-58M4CPZ7_BRARP; Uncharacterized protein
STRINGBra006286.1-P5e-59(Brassica rapa)
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
AT5G15160.12e-48BANQUO 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]