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

GSBRNA2T00129692001

Common Name

GSBRNA2T00129692001

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: 177aa MW: 18594.9 Da PI: 11.2823

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00129692001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	133.7	1.7e-41	27	139	2	112
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec.eaesssssasnsssgka 90 a+kk + +++hTkv+gR+RR+R+++ caar+F+L++eLG+++d++tieWLl+qa+p+i+++tgt++++as++ + s sss + g++ GSBRNA2T00129692001 27 AVKKPPAKDRHTKVDGRGRRIRMPIICAARVFQLTRELGHKSDGQTIEWLLRQAEPSIIAATGTGTTPASFStASLSTSSSFTLGKRGQQ 116 79*******************************************************************888433333333333333344 PP TCP 91 aksaa.kskksqksaasalnlak 112 ++++ ++++q++a++a ++ + GSBRNA2T00129692001 117 QAATLfVRQQQQQQASAAAAMGE 139 44444344444444443333333 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51369	27.59	33	87	IPR017887	Transcription factor TCP subgroup
Pfam	PF03634	1.8E-34	33	133	IPR005333	Transcription factor, TCP

Sequence ? help Back to Top
Protein Sequence Length: 177 aa Download sequence Send to blast
MTSNDGSVPN GVIVEHPSVV NKGALNAVKK PPAKDRHTKV DGRGRRIRMP IICAARVFQL 60 TRELGHKSDG QTIEWLLRQA EPSIIAATGT GTTPASFSTA SLSTSSSFTL GKRGQQQAAT 120 LFVRQQQQQQ ASAAAAMGEA SAARVGNYLP GHHLNLLASL SGGNTGSGRR EEDNPR*

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00129692001

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC189332	2e-98	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_009122445.1	1e-82	PREDICTED: transcription factor TCP21-like
Swissprot	Q9FTA2	5e-65	TCP21_ARATH; Transcription factor TCP21
TrEMBL	A0A397XPX2	3e-81	A0A397XPX2_BRACM; Uncharacterized protein
TrEMBL	M4CYP1	3e-81	M4CYP1_BRARP; Uncharacterized protein
STRING	Bra009338.1-P	6e-82	(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-44	TCP family protein

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]