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 mrna03871.1-v1.0-hybrid
Organism
Fragaria vesca
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria
Family RAV
Protein Properties Length: 384aa    MW: 42437.5 Da    PI: 9.6701
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
mrna03871.1-v1.0-hybridgenomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP243.39.4e-1470118155
                      AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                              s+ykGV   + +grW A+I++      ++r++lg+f  ++eAa+a++ a+++++g
  mrna03871.1-v1.0-hybrid  70 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAARAYDVAAQRFRG 118
                              89****9888.8*********3.....5**********99*************98 PP
2B3100.78.7e-32211310196
                              EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                              f+k+ tpsdv+k++rlv+pk++ae+h    +g++ +++ l +ed  g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F
  mrna03871.1-v1.0-hybrid 211 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqSGSTCKGVLLNFEDVGGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDIVSF 296
                              89**************************997777899************************************************* PP

                              EE-SSSEE..EEEE CS
                       B3  83 kldgrsefelvvkv 96 
                              +++   +++l++ +
  mrna03871.1-v1.0-hybrid 297 QRSTGPDRQLYIDW 310
                              *8766888777776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000187.56E-2670125No hitNo description
PfamPF008473.0E-970118IPR001471AP2/ERF domain
SuperFamilySSF541711.44E-1770126IPR016177DNA-binding domain
PROSITE profilePS5103220.45571126IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.108.4E-2171126IPR001471AP2/ERF domain
SMARTSM003803.4E-3171132IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.102.4E-41201315IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.59E-30209312IPR015300DNA-binding pseudobarrel domain
CDDcd100174.98E-29210299No hitNo description
SMARTSM010194.9E-24211314IPR003340B3 DNA binding domain
PfamPF023627.8E-29211310IPR003340B3 DNA binding domain
PROSITE profilePS5086314.085211314IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048573Biological Processphotoperiodism, flowering
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009005anatomyroot
PO:0007134developmental stagesporophyte vegetative stage
Sequence ? help Back to Top
Protein Sequence    Length: 384 aa     Download sequence    Send to blast
MDITSSTTDE STTSELSMSI SPPPRPNTQH NHNKLSSPPQ SLCRVGSGAS SVILDSENGI  60
EAESRKLPSS KYKGVVPQPN GRWGAQIYEK HQRVWLGTFN EEDEAARAYD VAAQRFRGRD  120
AVTNFKPLTE SSTTTTTDND DDEIEAAFLN SHSKSEIVDM LRKHTYNDEL EQSKRSYGFD  180
SNGKRRARGE GGPLTGAFGP DRAAKAREQL FEKAVTPSDV GKLNRLVIPK QHAEKHFPLQ  240
SGSTCKGVLL NFEDVGGKVW RFRYSYWNSS QSYVLTKGWS RFVKEKNLKA GDIVSFQRST  300
GPDRQLYIDW KTRTSTGPNP VQAGPVQMVR LFGVNIFKVP GSGGAAGTTV EAPIGCNVVG  360
KRMREFELLE LEFSKKQRII GAL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A4e-5920831611120DNA-binding protein RAV1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences. Functionally redundant with TEM2. {ECO:0000269|PubMed:18718758}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00024PBMTransfer from AT1G25560Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapmrna03871.1-v1.0-hybrid
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expressed with a circadian rhythm showing a peak at dawn. {ECO:0000269|PubMed:18718758}.
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_004297140.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription repressor TEM1-like
SwissprotQ9C6M51e-152RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A3S8T9B40.0A0A3S8T9B4_FRAAN; Transcription factor RAV6
STRINGXP_004297140.10.0(Fragaria vesca)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF29203274
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.11e-147RAV family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Choi D, et al.
    iNID: an analytical framework for identifying network models for interplays among developmental signaling in Arabidopsis.
    Mol Plant, 2014. 7(5): p. 792-813
    [PMID:24380880]
  3. Sgamma T,Jackson A,Muleo R,Thomas B,Massiah A
    TEMPRANILLO is a regulator of juvenility in plants.
    Sci Rep, 2014. 4: p. 3704
    [PMID:24424565]
  4. Matías-Hernández L,Aguilar-Jaramillo AE,Marín-González E,Suárez-López P,Pelaz S
    RAV genes: regulation of floral induction and beyond.
    Ann. Bot., 2014. 114(7): p. 1459-70
    [PMID:24812253]
  5. Marín-González E, et al.
    SHORT VEGETATIVE PHASE Up-Regulates TEMPRANILLO2 Floral Repressor at Low Ambient Temperatures.
    Plant Physiol., 2015. 169(2): p. 1214-24
    [PMID:26243615]
  6. Matías-Hernández L, et al.
    TEMPRANILLO Reveals the Mesophyll as Crucial for Epidermal Trichome Formation.
    Plant Physiol., 2016. 170(3): p. 1624-39
    [PMID:26802039]