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 mrna13354.1-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: 215aa    MW: 24454.8 Da    PI: 7.9664
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
mrna13354.1-v1.0-hybridgenomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF977.8e-311767151
                             S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                   SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                             krien + rqvtfskRrng+lKKA+ELSvLCdaevavi+fs++g+lye+ss
  mrna13354.1-v1.0-hybrid 17 KRIENATSRQVTFSKRRNGLLKKAYELSVLCDAEVAVIVFSQKGRLYEFSS 67
                             79***********************************************96 PP
2K-box76.19.3e-2668157695
                    K-box   6 gksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeen 91 
                              + +l+  + ++l++e+a + k+ie L+ +qR+llG dL+s+s +eL+q+ +qLe+s++ +R++K +l++eqie+lq ke+ l een
  mrna13354.1-v1.0-hybrid  68 SDNLNILQVQQLKHESADMAKKIEILEASQRRLLGHDLDSCSAQELNQISSQLERSIRIVRDRKGQLFMEQIERLQAKERILLEEN 153
                              4447777899**************************************************************************** PP

                    K-box  92 kaLr 95 
                              ++L+
  mrna13354.1-v1.0-hybrid 154 TKLH 157
                              **97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.772969IPR002100Transcription factor, MADS-box
SMARTSM004323.9E-42968IPR002100Transcription factor, MADS-box
CDDcd002652.68E-391174No hitNo description
PROSITE patternPS0035001165IPR002100Transcription factor, MADS-box
SuperFamilySSF554556.02E-301179IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-311131IPR002100Transcription factor, MADS-box
PfamPF003191.9E-271865IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-313146IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-314667IPR002100Transcription factor, MADS-box
PfamPF014861.1E-2375158IPR002487Transcription factor, K-box
PROSITE profilePS5129714.65776166IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009838Biological Processabscission
GO:0009909Biological Processregulation of flower development
GO:0010150Biological Processleaf senescence
GO:0080187Biological Processfloral organ senescence
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 215 aa     Download sequence    Send to blast
MENNGREEMV RGKIEMKRIE NATSRQVTFS KRRNGLLKKA YELSVLCDAE VAVIVFSQKG  60
RLYEFSSSDN LNILQVQQLK HESADMAKKI EILEASQRRL LGHDLDSCSA QELNQISSQL  120
ERSIRIVRDR KGQLFMEQIE RLQAKERILL EENTKLHIAC GARPWQQHIV QEKEVGAATY  180
NWMNSSQSSS SQTISNSDQV ETGLFIGPPA MRCE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1n6j_A2e-1911102293Myocyte-specific enhancer factor 2B
1n6j_B2e-1911102293Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtMADS-box transcription factor that acts with AGL71 and AGL72 in the control of flowering time. Promotes flowering at the shoot apical and axillary meristems. Seems to act through a gibberellin-dependent pathway. Interacts genetically with SOC1 and its expression is directly regulated by SOC1 (PubMed:21609362). Plays a role in controlling flower organ senescence and abscission by repressing ethylene responses and regulating the expression of BOP2 and IDA (PubMed:21689171). {ECO:0000269|PubMed:21609362, ECO:0000269|PubMed:21689171}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00576DAPTransfer from AT5G62165Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapmrna13354.1-v1.0-hybrid
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU0248632e-99EU024863.1 Fragaria vesca subsp. americana clone fosmid 52I20, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004308127.11e-129PREDICTED: MADS-box protein SOC1-like isoform X2
SwissprotQ9FIS13e-68AGL42_ARATH; MADS-box protein AGL42
TrEMBLA0A2P6SMU01e-116A0A2P6SMU0_ROSCH; Putative transcription factor MADS-MIKC family
STRINGXP_004308127.11e-129(Fragaria vesca)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF66630102
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62165.31e-67AGAMOUS-like 42