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 GSBRNA2T00034968001
Common NameGSBRNA2T00034968001, LOC106362442
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: 319aa    MW: 35288.5 Da    PI: 8.1305
Description TCP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00034968001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP117.22.1e-36461622135
                  TCP   2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssaseceaesssssasnsssgkaa 91 
                           g+kdrhsk+ T++g+RdRR+Rls+ +a++f+dLqd+LGfd++sk++eWL+++a  +i el+  ++s  +                  a 
  GSBRNA2T00034968001  46 SGGKDRHSKVLTSKGLRDRRIRLSVATAIQFYDLQDRLGFDQPSKAVEWLINAAADSISELPPINTSFDQ------------------AL 117
                          689************************************************************9555552..................22 PP

                  TCP  92 ksaakskksqksaasalnlak.esrakarararertrekmriknk 135
                          + +++  +s +s++s l+l++ esr kar+rarert++++ ++ +
  GSBRNA2T00034968001 118 SLSKSACSSGTSESSLLSLSRtESRGKARERARERTAKDKDKDLQ 162
                          2223344555666777999999**************999887755 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF036345.0E-3347129IPR005333Transcription factor, TCP
PROSITE profilePS5136931.80248106IPR017887Transcription factor TCP subgroup
PROSITE profilePS513709.833139157IPR017888CYC/TB1, R domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008285Biological Processnegative regulation of cell proliferation
GO:0009965Biological Processleaf morphogenesis
GO:0030154Biological Processcell differentiation
GO:0045962Biological Processpositive regulation of development, heterochronic
Sequence ? help Back to Top
Protein Sequence    Length: 319 aa     Download sequence    Send to blast
MEVDDDIDEQ QQTSRKLQRI SSDNDKNGMR DWNNPSSRII RVSRASGGKD RHSKVLTSKG  60
LRDRRIRLSV ATAIQFYDLQ DRLGFDQPSK AVEWLINAAA DSISELPPIN TSFDQALSLS  120
KSACSSGTSE SSLLSLSRTE SRGKARERAR ERTAKDKDKD LQNAQSSFTQ LLTGGFDEPN  180
RNWIGGSSSD CFNPVQLIPN SSSSSLHHYN TNNHRQETSL NHHLSFVPDY NFGISSSDSP  240
AAAAVNGGCY TSRGTLQSNS HSHFLNNNNV NQRPISFMAT PPPLDHHNHQ LPATFDGRLY  300
LYYGEGNRSS DDKGKDGR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zkt_A2e-2153107155Putative transcription factor PCF6
5zkt_B2e-2153107155Putative 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, roots, stems, buds, flowers and siliques. {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). In association with ABAP1, exerts a negative role in cell proliferation in leaves, possibly by inhibiting mitotic DNA replication. Participates in ovule develpment (PubMed:25378179). {ECO:0000269|PubMed:17307931, ECO:0000269|PubMed:18818695, ECO:0000269|PubMed:25378179}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00169DAPTransfer from AT1G30210Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00034968001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013657793.10.0transcription factor TCP24
RefseqXP_022546693.10.0transcription factor TCP24
RefseqXP_022546694.10.0transcription factor TCP24
SwissprotQ9C7581e-148TCP24_ARATH; Transcription factor TCP24
TrEMBLA0A078GII50.0A0A078GII5_BRANA; BnaA09g26360D protein
STRINGBra032365.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM138401726
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30210.21e-122TCP 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]
  2. Wang H,Mao Y,Yang J,He Y
    TCP24 modulates secondary cell wall thickening and anther endothecium development.
    Front Plant Sci, 2015. 6: p. 436
    [PMID:26157444]
  3. Zhu P, et al.
    Arabidopsis small nucleolar RNA monitors the efficient pre-rRNA processing during ribosome biogenesis.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(42): p. 11967-11972
    [PMID:27708161]