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 GSBRNA2T00029644001
Common NameGSBRNA2T00029644001
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: 398aa    MW: 44690.6 Da    PI: 8.056
Description TCP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00029644001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP106.25.2e-331622762105
                  TCP   2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec..eaesssssasnsssg. 88 
                           g+kdrhsk++T +g+RdRRvRls+++a++++dLq++LG+d++sk+++WLl++ak +i+el+ ++ s+++++  ++++   + s++  + 
  GSBRNA2T00029644001 162 FGGKDRHSKVCTLRGLRDRRVRLSVPTAIQLYDLQERLGLDQPSKAVDWLLNAAKDEIDELPPLPVSPETFSlfNHHQAFLNLSQPPGQd 251
                          689*************************************************************88888666666666655555444445 PP

                  TCP  89 .................kaaksaakskksqksaa 105
                                                      s+++++
  GSBRNA2T00029644001 252 ptqlgfkingcveesntT---------TSREETN 276
                          566666665544322210.........1111111 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF036343.2E-29164272IPR005333Transcription factor, TCP
PROSITE profilePS5136931.686164222IPR017887Transcription factor TCP subgroup
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0016021Cellular Componentintegral component of membrane
Sequence ? help Back to Top
Protein Sequence    Length: 398 aa     Download sequence    Send to blast
ACETGRVLIF TSKSIYLFLI FFFFSYSHFI HAFEKEKRNQ ILFFSLSLIL IQSLFFIIIL  60
LLALSNSKTL DLLFKLMTVQ TQELNTSIMN TGPWRDANDD VSGGTRTRRN GEVEEDSEEA  120
VVVAVATSGK PVIKKPPTSI PSSSSSWMKS KDPRIVRVSR AFGGKDRHSK VCTLRGLRDR  180
RVRLSVPTAI QLYDLQERLG LDQPSKAVDW LLNAAKDEID ELPPLPVSPE TFSLFNHHQA  240
FLNLSQPPGQ DPTQLGFKIN GCVEESNTTT SREETNNNHI GSYGTYQNME QHQQQHTRFQ  300
ADYPHHQHQF HSIVPIQSQL LVCPVTTSST TTTIQSLFPS SSSAGSRTME TTDPRQMVSH  360
FQMPLMGSSS SSQNISTLYS LLHGYSNPMP SVQFDRK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zkt_A1e-18169223155Putative transcription factor PCF6
5zkt_B1e-18169223155Putative 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00029644001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2324590.0AC232459.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB020F06, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_022575679.10.0transcription factor TCP13-like isoform X1
SwissprotQ9S7W51e-153TCP13_ARATH; Transcription factor TCP13
TrEMBLA0A078J3K50.0A0A078J3K5_BRANA; BnaAnng16870D protein (Fragment)
STRINGBo5g152840.10.0(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-124plastid 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]