PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSBRNA2T00017223001
Common NameGSBRNA2T00017223001, LOC106375220
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: 221aa    MW: 25700.7 Da    PI: 8.7243
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00017223001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF89.61.7e-28959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krien + rqvtfskRr+g++KKA+ELSvLCda+va i+fs++g+ly+++s
  GSBRNA2T00017223001  9 KRIENLTSRQVTFSKRRKGLFKKAHELSVLCDAQVAAIVFSQKGRLYDFAS 59
                         79***********************************************86 PP
2K-box54.54.9e-1983176999
                K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqk...kekelqeenkaLr 95 
                           +++  ++l++e+  + ++ie L+   R+l+G+dL+s+s++eL+++ +++eksl+++Rs+K +l  ++ie+l++   keke+ +e  +Lr
  GSBRNA2T00017223001  83 RKQQYVQELKNEMVIMADKIELLRLHSRRLMGQDLDSCSVEELNEIISKIEKSLTNVRSRKAKLNEDKIEKLKEeiaKEKEVFNEGSRLR 172
                          5677889*****************999*********************************************965559999999999999 PP

                K-box  96 kkle 99 
                          +++e
  GSBRNA2T00017223001 173 QMFE 176
                          9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006630.824161IPR002100Transcription factor, MADS-box
SMARTSM004321.5E-39160IPR002100Transcription factor, MADS-box
CDDcd002653.33E-38368No hitNo description
PRINTSPR004041.3E-28323IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.05E-29370IPR002100Transcription factor, MADS-box
PfamPF003191.1E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-283859IPR002100Transcription factor, MADS-box
PfamPF014861.1E-1785175IPR002487Transcription factor, K-box
PROSITE profilePS5129712.02188181IPR002487Transcription 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: 221 aa     Download sequence    Send to blast
MVKGKIEIKR IENLTSRQVT FSKRRKGLFK KAHELSVLCD AQVAAIVFSQ KGRLYDFASS  60
DMQKMMERCE IHRNEYFGEE NLRKQQYVQE LKNEMVIMAD KIELLRLHSR RLMGQDLDSC  120
SVEELNEIIS KIEKSLTNVR SRKAKLNEDK IEKLKEEIAK EKEVFNEGSR LRQMFEAQPL  180
WMQSRSLKSE KSAPSCDCGN MNISDVETEL FIGLRPESQM *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P5e-17166166Myocyte-specific enhancer factor 2B
1tqe_Q5e-17166166Myocyte-specific enhancer factor 2B
1tqe_R5e-17166166Myocyte-specific enhancer factor 2B
1tqe_S5e-17166166Myocyte-specific enhancer factor 2B
6c9l_A5e-17166166Myocyte-specific enhancer factor 2B
6c9l_B5e-17166166Myocyte-specific enhancer factor 2B
6c9l_C5e-17166166Myocyte-specific enhancer factor 2B
6c9l_D5e-17166166Myocyte-specific enhancer factor 2B
6c9l_E5e-17166166Myocyte-specific enhancer factor 2B
6c9l_F5e-17166166Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the shoot apical meristem (SAM) during the vegetative phase and the floral transition. After floral transition, expressed in apical meristem (AM), inflorescence meristem (IM) and floral primordia. {ECO:0000269|PubMed:21609362}.
Functional Description ? help Back to Top
Source Description
UniProtMADS-box transcription factor that acts with AGL42 and AGL71 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. {ECO:0000269|PubMed:21609362}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00017223001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1893094e-63AC189309.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB034C07, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_022546751.11e-160MADS-box protein AGL72
SwissprotQ9FLH55e-73AGL72_ARATH; MADS-box protein AGL72
TrEMBLA0A078IVV51e-159A0A078IVV5_BRANA; BnaA01g35210D protein
STRINGBra013891.1-P1e-127(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM88051235
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G51860.23e-67MIKC_MADS family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. 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]