PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

GSBRNA2T00015984001

Common Name

GSBRNA2T00015984001, LOC106406772

Organism

Brassica napus

Taxonomic ID

3708

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: 237aa MW: 24750.4 Da PI: 7.8173

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00015984001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	121.2	1.2e-37	27	190	2	120
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssaseceaesssssas...nsssg 88 a+kk + ++h+kv+gR+RR+R+++ caar+F+L++eLG+++d++tieWLl+qa+p+i+++tgt++++as++ ++s s s+ + GSBRNA2T00015984001 27 AVKKPPANDRHSKVDGRGRRIRMPVICAARVFQLTRELGHKSDGQTIEWLLRQAEPSIIAATGTGTTPASFS-TASLSTSSPftlG---K 112 789*************************************************************99999666.2233332222220...1 PP TCP 89 ...........................................................kaaksaakskksqksaasalnlakesrakar 119 + q++a+ l + +++++++ GSBRNA2T00015984001 113 rvvraeegesgagggelsvghtmgasggggfwavparndftqvwsfaagappemlftqqQ-----------QQPAT--LFVRHQQQQQQE 189 344444445566778888888888888889999999999999998875333333333221...........22222..222222222222 PP TCP 120 a 120 a GSBRNA2T00015984001 190 A 190 2 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51369	26.738	33	87	IPR017887	Transcription factor TCP subgroup
Pfam	PF03634	2.3E-32	34	188	IPR005333	Transcription factor, TCP

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0042752	Biological Process	regulation of circadian rhythm
GO:0043433	Biological Process	negative regulation of sequence-specific DNA binding transcription factor activity
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 237 aa Download sequence Send to blast
MSNDDGTVTN GAIVEHTSAA NKGTLNAVKK PPANDRHSKV DGRGRRIRMP VICAARVFQL 60 TRELGHKSDG QTIEWLLRQA EPSIIAATGT GTTPASFSTA SLSTSSPFTL GKRVVRAEEG 120 ESGAGGGELS VGHTMGASGG GGFWAVPARN DFTQVWSFAA GAPPEMLFTQ QQQQPATLFV 180 RHQQQQQQEA SAAAAMGEAS AARVGNYLPG HHLNLLASLS GGNTGSGRRE EEDDSR*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in leaves, roots, and stems. {ECO:0000269\|PubMed:19286557}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in the regulation of the circadian clock. Acts as a repressor of CCA1 by binding to its promoter. No binding to the LHY promoter. {ECO:0000269\|PubMed:19286557}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00499	DAP	Transfer from AT5G08330	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00015984001

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC189332	0.0	AC189332.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB038E05, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013702960.1	1e-173	transcription factor TCP21
Swissprot	Q9FTA2	1e-113	TCP21_ARATH; Transcription factor TCP21
TrEMBL	A0A078G838	1e-172	A0A078G838_BRANA; BnaC09g47560D protein
STRING	Bra009338.1-P	1e-169	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1782	26	85

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G08330.1	5e-87	TCP family protein

Link Out ? help Back to Top
Entrez Gene	106406772

Publications ? help Back to Top
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] Wu JF, et al. LWD-TCP complex activates the morning gene CCA1 in Arabidopsis. Nat Commun, 2016. 7: p. 13181 [PMID:27734958] Ng DW,Chen HH,Chen ZJ Heterologous protein-DNA interactions lead to biased allelic expression of circadian clock genes in interspecific hybrids. Sci Rep, 2017. 7: p. 45087 [PMID:28345627] Lee CM, et al. Decoys Untangle Complicated Redundancy and Reveal Targets of Circadian Clock F-Box Proteins. Plant Physiol., 2018. 177(3): p. 1170-1186 [PMID:29794020]