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 GSBRNA2T00153625001
Common NameGSBRNA2T00153625001, LOC106388643
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 TCP
Protein Properties Length: 321aa    MW: 35752.4 Da    PI: 7.0812
Description TCP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00153625001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP106.15.6e-33591852113
                  TCP   2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec..eaesssssasnsssg. 88 
                           g+kdrhsk++T +g+RdRRvRls+++a++++dLq++LG+d++sk+++WLl+ ak++i+el+ ++ s+++++  ++++s  + ++   + 
  GSBRNA2T00153625001  59 FGGKDRHSKVCTLRGLRDRRVRLSVPTAIQLYDLQERLGLDQPSKAVDWLLNVAKEEIDELPPLPVSPETFTlfNHHQSFLNLGQRPGQd 148
                          689*************************************************************88888777665555555555333335 PP

                  TCP  89 ..............kaaksaakskksqksaasalnlake 113
                                        +  +++  +++++++ ++  ++ ++
  GSBRNA2T00153625001 149 ptqlgfkingcveeS--TTTSREENNNERGEKDVSFENN 185
                          666666676666431..2222222222222222223222 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF036345.8E-2961177IPR005333Transcription factor, TCP
PROSITE profilePS5136931.27561119IPR017887Transcription factor TCP subgroup
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009965Biological Processleaf morphogenesis
GO:0030154Biological Processcell differentiation
GO:0031347Biological Processregulation of defense response
GO:0045962Biological Processpositive regulation of development, heterochronic
GO:0009507Cellular Componentchloroplast
Sequence ? help Back to Top
Protein Sequence    Length: 321 aa     Download sequence    Send to blast
MDTGPWKDTN DDVSGQTRTR REGESEEAVA TTKRPATISS SSSWMKSKDP RIVRVSRAFG  60
GKDRHSKVCT LRGLRDRRVR LSVPTAIQLY DLQERLGLDQ PSKAVDWLLN VAKEEIDELP  120
PLPVSPETFT LFNHHQSFLN LGQRPGQDPT QLGFKINGCV EESTTTSREE NNNERGEKDV  180
SFENNHHIGS YGTYHNMEHH HQQHSSFQAD YHQHQLHSLV PFPSQFLVCP MTTLSTTTTT  240
TQSLFPSSSS AGSWTMETTD PRRMVSHFQM PLMGSSSSSA SQNISTLYSL LHGSSSNNGS  300
SNRMSSVQLN QTSRGSDNPM *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zkt_A3e-1966120155Putative transcription factor PCF6
5zkt_B3e-1966120155Putative transcription factor PCF6
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during ovule development (PubMed:25378179). {ECO:0000269|PubMed:25378179}.
UniprotTISSUE SPECIFICITY: Expressed in cotyledons, particularly in the vascular region, in leaves, buds, flowers and immature siliques, and, to a lower extent, in roots. {ECO:0000269|PubMed:11161017, ECO:0000269|PubMed:17307931}.
Functional Description ? help Back to Top
Source Description
UniProtPlays a pivotal role in the control of morphogenesis of shoot organs by negatively regulating the expression of boundary-specific genes such as CUC genes, probably through the induction of miRNA (e.g. miR164). Binds to the 3'-ACC-5' repeats in the light-responsive promoter (LRP) of psbD, and activates its transcription. Participates in ovule develpment (PubMed:25378179). {ECO:0000269|PubMed:11161017, ECO:0000269|PubMed:17307931, ECO:0000269|PubMed:25378179}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00326DAPTransfer from AT3G02150Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00153625001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0144650.0AB014465.1 Arabidopsis thaliana mRNA for TFPD, complete cds.
GenBankATAC0097550.0AC009755.7 Arabidopsis thaliana chromosome III BAC F14P3 genomic sequence, complete sequence.
GenBankATAC0116640.0AC011664.10 Arabidopsis thaliana chromosome III BAC F1C9 genomic sequence, complete sequence.
GenBankBT0019820.0BT001982.1 Arabidopsis thaliana expressed protein (At3g02150) mRNA, complete cds.
GenBankBT0088390.0BT008839.1 Arabidopsis thaliana At3g02156 mRNA, complete cds.
GenBankCP0026860.0CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013623501.10.0PREDICTED: transcription factor TCP13-like
RefseqXP_013623502.10.0PREDICTED: transcription factor TCP13-like
RefseqXP_013623503.10.0PREDICTED: transcription factor TCP13-like
RefseqXP_013623504.10.0PREDICTED: transcription factor TCP13-like
RefseqXP_013684210.10.0transcription factor TCP13
RefseqXP_013684211.10.0transcription factor TCP13
RefseqXP_013684212.10.0transcription factor TCP13
RefseqXP_013684213.10.0transcription factor TCP13
SwissprotQ9S7W51e-166TCP13_ARATH; Transcription factor TCP13
TrEMBLA0A0D3B9D00.0A0A0D3B9D0_BRAOL; Uncharacterized protein
STRINGBo3g055460.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM91342637
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02150.21e-139plastid transcription factor 1
Publications ? help Back to Top
  1. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]
  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]
  3. Yamburenko MV,Zubo YO,Börner T
    Abscisic acid affects transcription of chloroplast genes via protein phosphatase 2C-dependent activation of nuclear genes: repression by guanosine-3'-5'-bisdiphosphate and activation by sigma factor 5.
    Plant J., 2015. 82(6): p. 1030-41
    [PMID:25976841]
  4. Koyama T,Sato F,Ohme-Takagi M
    Roles of miR319 and TCP Transcription Factors in Leaf Development.
    Plant Physiol., 2017. 175(2): p. 874-885
    [PMID:28842549]