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_04403.1_g00002.1
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 SBP
Protein Properties Length: 180aa    MW: 20569.1 Da    PI: 10.2415
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_04403.1_g00002.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP135.91.2e-4261136277
                              -SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS
                      SBP   2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 
                              Cqv++C++dl+eak+yhrrhkvCevh+ka++v+++g++qrfCqqCsrfhel efDe+krsCrrrLa+hnerrrk++
  Rsa1.0_04403.1_g00002.1  61 CQVDRCTTDLKEAKQYHRRHKVCEVHAKASSVYLAGVKQRFCQQCSRFHELPEFDEAKRSCRRRLAGHNERRRKSS 136
                              **************************************************************************87 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PIRSFPIRSF0375753.1E-581148IPR017238Squamosa promoter-binding protein
Gene3DG3DSA:4.10.1100.109.1E-3356122IPR004333Transcription factor, SBP-box
PROSITE profilePS5114132.23158135IPR004333Transcription factor, SBP-box
SuperFamilySSF1036128.37E-3960139IPR004333Transcription factor, SBP-box
PfamPF031101.8E-3261134IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 180 aa     Download sequence    Send to blast
MEGKKAQGRG YLKKKASVST YLVDEELEND TDGEEEVGRE EEKRKGAIKG SSSDRVSSRL  60
CQVDRCTTDL KEAKQYHRRH KVCEVHAKAS SVYLAGVKQR FCQQCSRFHE LPEFDEAKRS  120
CRRRLAGHNE RRRKSSGESF GEGSGGRRGL TGQVMQNQER SRVEMTLPKS NTSFKRPQIR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A1e-4459134984squamosa promoter binding protein-like 4
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTrans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3' of AP1 promoter. Promotes both vegetative phase change and flowering. {ECO:0000269|PubMed:10524240, ECO:0000269|PubMed:16914499}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_04403.1_g00002.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Negatively regulated by microRNAs miR156. {ECO:0000269|PubMed:16914499}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ0116321e-99AJ011632.1 Arabidopsis thaliana (ecotype Landsberg erecta) mRNA for squamosa promoter binding protein-like 4, partial.
GenBankAY0849021e-99AY084902.1 Arabidopsis thaliana clone 12071 mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013746617.21e-108squamosa promoter-binding-like protein 5
RefseqXP_018514341.11e-108PREDICTED: squamosa promoter-binding-like protein 5 isoform X2
SwissprotQ9S7585e-84SPL5_ARATH; Squamosa promoter-binding-like protein 5
TrEMBLA0A078GKE91e-109A0A078GKE9_BRANA; Squamosa promoter-binding-like protein
STRINGBra038101.1-P1e-105(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM86828118
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G53160.24e-65squamosa promoter binding protein-like 4
Publications ? help Back to Top
  1. Jorgensen SA,Preston JC
    Differential SPL gene expression patterns reveal candidate genes underlying flowering time and architectural differences in Mimulus and Arabidopsis.
    Mol. Phylogenet. Evol., 2014. 73: p. 129-39
    [PMID:24508602]
  2. Xu M, et al.
    Developmental Functions of miR156-Regulated SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) Genes in Arabidopsis thaliana.
    PLoS Genet., 2016. 12(8): p. e1006263
    [PMID:27541584]
  3. Ioannidi E, et al.
    Trichome patterning control involves TTG1 interaction with SPL transcription factors.
    Plant Mol. Biol., 2016. 92(6): p. 675-687
    [PMID:27631431]
  4. Jung JH,Lee HJ,Ryu JY,Park CM
    SPL3/4/5 Integrate Developmental Aging and Photoperiodic Signals into the FT-FD Module in Arabidopsis Flowering.
    Mol Plant, 2016. 9(12): p. 1647-1659
    [PMID:27815142]