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

GSBRNA2T00080768001

Common Name

GSBRNA2T00080768001, LOC106380529

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: 226aa MW: 23567.4 Da PI: 9.8483

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00080768001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	125.4	6.1e-39	21	102	2	83
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssaseceaesssssas 83 a+kk +++++h+kv+gR+RR+R+++ caar+F+L++eLG+++d++tieWLl+qa+p+i+++tgt++++as+++a+ s+ss+ GSBRNA2T00080768001 21 AVKKPPTKDRHSKVDGRGRRIRMPIICAARVFQLTRELGHKSDGQTIEWLLRQAEPSIIAATGTGTTPASFSTASLSVSSSP 102 79*******************************************************************8885555555544 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	4.9E-33	27	106	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	28.287	27	81	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 226 aa Download sequence Send to blast
MENNDGAMTN GVIINKGPLN AVKKPPTKDR HSKVDGRGRR IRMPIICAAR VFQLTRELGH 60 KSDGQTIEWL LRQAEPSIIA ATGTGTTPAS FSTASLSVSS SPFALGKRVV RAEEEGESGG 120 PGGGGELTVG HTMSGGGGGF WAVPARQDFG QVWSFAAGAT PEMLFTQQQQ AATLFVRQQQ 180 QAVAAMGEAS AARVGNYLPG HHLNLLASLS GGSPGSGRRE EDDSR*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.21631	8e-50	leaf

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	GSBRNA2T00080768001

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013621571.1	1e-164	PREDICTED: transcription factor TCP21-like
Refseq	XP_013675750.1	1e-164	transcription factor TCP21 isoform X1
Swissprot	Q9FTA2	1e-108	TCP21_ARATH; Transcription factor TCP21
TrEMBL	A0A078I1M7	1e-163	A0A078I1M7_BRANA; BnaC02g01170D protein
TrEMBL	A0A0D3AI71	1e-163	A0A0D3AI71_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6CVS1	1e-163	A0A3P6CVS1_BRAOL; Uncharacterized protein
STRING	Bo2g009040.1	1e-163	(Brassica oleracea)

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	2e-75	TCP family protein

Link Out ? help Back to Top
Entrez Gene	106380529

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]