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 mrna04562.1-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 MIKC_MADS
Protein Properties Length: 246aa    MW: 28603.6 Da    PI: 8.2221
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
mrna04562.1-v1.0-hybridgenomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF94.45.2e-30959151
                             S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                   SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                             krienk+nrqvtfskRr+g+lKKA+E+Sv+Cda+va+i+fs++gkl+ey++
  mrna04562.1-v1.0-hybrid  9 KRIENKINRQVTFSKRRTGLLKKAHEISVMCDAQVALIVFSNKGKLFEYAT 59
                             79***********************************************86 PP
2K-box101.61e-338717413100
                    K-box  13 kaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                               + ++  e+a+Lk ++e Lqr++Rh+lGedL+sLs+ke+q+LeqqLe++lk+iRs+Kn+l++e+i+elq+kek+++e+n+ L+kk+
  mrna04562.1-v1.0-hybrid  87 SQGNWPFEHARLKVKVELLQRNLRHYLGEDLDSLSIKEIQSLEQQLETALKQIRSRKNQLMHESISELQRKEKAIKEQNNLLSKKI 172
                              5678999******************************************************************************9 PP

                    K-box  99 ee 100
                              +e
  mrna04562.1-v1.0-hybrid 173 KE 174
                              87 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.931161IPR002100Transcription factor, MADS-box
SMARTSM004323.5E-39160IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.7E-33289IPR002100Transcription factor, MADS-box
CDDcd002651.70E-40279No hitNo description
PRINTSPR004042.0E-30323IPR002100Transcription factor, MADS-box
PfamPF003191.2E-241057IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-302338IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-303859IPR002100Transcription factor, MADS-box
PfamPF014866.4E-2987172IPR002487Transcription factor, K-box
PROSITE profilePS5129716.93888178IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009933Biological Processmeristem structural organization
GO:0010076Biological Processmaintenance of floral meristem identity
GO:0010582Biological Processfloral meristem determinacy
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 246 aa     Download sequence    Send to blast
MGRGRVQLKR IENKINRQVT FSKRRTGLLK KAHEISVMCD AQVALIVFSN KGKLFEYATD  60
SCMEDILERY ERYSYAERQL VEPDFDSQGN WPFEHARLKV KVELLQRNLR HYLGEDLDSL  120
SIKEIQSLEQ QLETALKQIR SRKNQLMHES ISELQRKEKA IKEQNNLLSK KIKEHEKNVA  180
EAQEVHDWEQ QQQNHGLNLL AQGPIPCLNM GGTQQNDQFL QVRRNQLDLT LEPSLYSCHL  240
GCFAS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A9e-21174173MEF2 CHIMERA
6byy_B9e-21174173MEF2 CHIMERA
6byy_C9e-21174173MEF2 CHIMERA
6byy_D9e-21174173MEF2 CHIMERA
6bz1_A8e-21174173MEF2 CHIMERA
6bz1_B8e-21174173MEF2 CHIMERA
6bz1_C8e-21174173MEF2 CHIMERA
6bz1_D8e-21174173MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in flower development. {ECO:0000250|UniProtKB:Q0HA25}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00096ChIP-seqTransfer from AT1G69120Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapmrna04562.1-v1.0-hybrid
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN7882620.0JN788262.1 Fragaria x ananassa AP1-like transcription factor (AP1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004297215.10.0PREDICTED: truncated transcription factor CAULIFLOWER A
SwissprotQ6E6S71e-125AP1_VITVI; Agamous-like MADS-box protein AP1
TrEMBLH6V2T90.0H6V2T9_FRAAN; AP1-like transcription factor
STRINGXP_004297215.10.0(Fragaria vesca)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF58832119
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G69120.11e-114MIKC_MADS family protein
Publications ? help Back to Top
  1. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  2. Díaz-Riquelme J,Lijavetzky D,Martínez-Zapater JM,Carmona MJ
    Genome-wide analysis of MIKCC-type MADS box genes in grapevine.
    Plant Physiol., 2009. 149(1): p. 354-69
    [PMID:18997115]
  3. Grimplet J,Martínez-Zapater JM,Carmona MJ
    Structural and functional annotation of the MADS-box transcription factor family in grapevine.
    BMC Genomics, 2016. 17: p. 80
    [PMID:26818751]