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 GSBRNA2T00056989001
Common NameGSBRNA2T00056989001, LOC106386001
Organism
Brassica napus
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 MIKC_MADS
Protein Properties Length: 219aa    MW: 25731.3 Da    PI: 9.6776
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00056989001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF977.8e-31959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krienk+nrqvtfskRr+g+lKKA+E+S+LCdaev++i+fs++gkl+eyss
  GSBRNA2T00056989001  9 KRIENKINRQVTFSKRRAGLLKKAHEISILCDAEVSLIVFSHKGKLFEYSS 59
                         79***********************************************96 PP
2K-box102.17.6e-34841768100
                K-box   8 sleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                          + + + + +++ e+++Lk++ie L+r+qRh+lGedLes+s+keLq+LeqqL++slk+iRs+Kn+l++e++++lq+keke+ een +L k+
  GSBRNA2T00056989001  84 DSHVNAQTNWSVEYSRLKAKIELLERNQRHYLGEDLESISIKELQNLEQQLDTSLKHIRSRKNQLMHESLNHLQRKEKEILEENSMLAKQ 173
                          36677789*********************************************************************************9 PP

                K-box  98 lee 100
                          + e
  GSBRNA2T00056989001 174 IRE 176
                          975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.184161IPR002100Transcription factor, MADS-box
SMARTSM004323.2E-40160IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.44E-33286IPR002100Transcription factor, MADS-box
CDDcd002654.65E-41279No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004048.5E-31323IPR002100Transcription factor, MADS-box
PfamPF003194.2E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004048.5E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004048.5E-313859IPR002100Transcription factor, MADS-box
PfamPF014862.8E-3085174IPR002487Transcription factor, K-box
PROSITE profilePS5129716.99490180IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 219 aa     Download sequence    Send to blast
MGRGRVEMKR IENKINRQVT FSKRRAGLLK KAHEISILCD AEVSLIVFSH KGKLFEYSSE  60
SCMEKVLEHY ERYSYAEKQL KVPDSHVNAQ TNWSVEYSRL KAKIELLERN QRHYLGEDLE  120
SISIKELQNL EQQLDTSLKH IRSRKNQLMH ESLNHLQRKE KEILEENSML AKQIRERESI  180
LRTHQNQSEQ QNRSHHVAPQ PQPQLNPYMA SSPFLNMG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A1e-21174173MEF2 CHIMERA
6byy_B1e-21174173MEF2 CHIMERA
6byy_C1e-21174173MEF2 CHIMERA
6byy_D1e-21174173MEF2 CHIMERA
6bz1_A1e-21174173MEF2 CHIMERA
6bz1_B1e-21174173MEF2 CHIMERA
6bz1_C1e-21174173MEF2 CHIMERA
6bz1_D1e-21174173MEF2 CHIMERA
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Accumulates in early floral primordia and fades out in cells that will give rise to stamens and carpels. {ECO:0000269|PubMed:18332227, ECO:0000269|PubMed:7824951}.
UniprotTISSUE SPECIFICITY: Expressed in some of the meristems of arrest-stage broccoli heads. {ECO:0000269|PubMed:9084216}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that promotes early floral meristem identity in synergy with APETALA1, FRUITFULL and LEAFY. Is required subsequently for the transition of an inflorescence meristem into a floral meristem. Seems to be partially redundant to the function of APETALA1 (By similarity). {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00056989001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBNADBD0.0L36926.1 Brassica oleracea (clone pBS85) BoCAL mRNA, complete cds.
GenBankBOU674540.0U67454.1 Brassica oleracea homeotic protein boical (BoiCAL) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013613941.11e-159PREDICTED: transcription factor CAULIFLOWER isoform X2
RefseqXP_013681355.11e-159transcription factor CAULIFLOWER
SwissprotQ393751e-159CAL_BRAOT; Transcription factor CAULIFLOWER
TrEMBLA0A078HAT61e-158A0A078HAT6_BRANA; BnaC03g56640D protein
STRINGBra011021.1-P1e-151(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM79225110
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G26310.11e-130MIKC_MADS family protein
Publications ? help Back to Top
  1. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]