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

GSBRNA2T00017146001

Common Name

GSBRNA2T00017146001

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: 383aa MW: 41979.5 Da PI: 7.4662

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00017146001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	115.6	6.4e-36	54	188	2	136
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssaseceaesssssasnsssgkaa 91 g+kdrhsk+ T++g+RdRRvRls+++a +f+dLqd+LG+d++sk++eWL+++a+ +i el+++ ++++ +++++++ + + s+ aa GSBRNA2T00017146001 54 SGGKDRHSKVWTSKGPRDRRVRLSVSTALQFYDLQDRLGYDQPSKAVEWLIKAAEDSISELPSL-NNTNFPMNDDDNQIPTLTGASPTAA 142 689*************************************************************.4444344333333333333333333 PP TCP 92 ksaa.kskksqksaasalnlakesr..akarararertrekmriknkl 136 ++aa + +ks s+ +++ +k+s+ + +r+rarert+++ + ++ + GSBRNA2T00017146001 143 AAAAnSLSKSACSS--NSDTSKNSSglSLSRERARERTAKETKERDGN 188 33321223333333..34444444444666666666666665555433 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	8.7E-36	55	184	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	31.229	56	114	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 383 aa Download sequence Send to blast
MVIEKLRNES IGDDEMIGDL MKNNNGDVVD NTNNNRLSRW HHNSSRIIRV SRASGGKDRH 60 SKVWTSKGPR DRRVRLSVST ALQFYDLQDR LGYDQPSKAV EWLIKAAEDS ISELPSLNNT 120 NFPMNDDDNQ IPTLTGASPT AAAAAANSLS KSACSSNSDT SKNSSGLSLS RERARERTAK 180 ETKERDGNNN HHTTSFTDLL NSGSDPVNTN RQWMAPSSSP APMEYFSSGL ILGSGQTHFP 240 IQTNSHPFSS ISDHHHQHHP HQEFSFVPDH LISPAGSNGG GAFNLDFNMS TTSVASTGFS 300 GFNRGTLQSN STNHHHHHQS FLANLQRFPS SEGGGGPQFL FGTGALPAEN QHPHHNNNNN 360 HQFQLYYENG CRNSDQKGKG KN*

Sequence ? help Back to Top

Protein Sequence Length: 383 aa Download sequence Send to blast

MVIEKLRNES IGDDEMIGDL MKNNNGDVVD NTNNNRLSRW HHNSSRIIRV SRASGGKDRH  60
SKVWTSKGPR DRRVRLSVST ALQFYDLQDR LGYDQPSKAV EWLIKAAEDS ISELPSLNNT  120
NFPMNDDDNQ IPTLTGASPT AAAAAANSLS KSACSSNSDT SKNSSGLSLS RERARERTAK  180
ETKERDGNNN HHTTSFTDLL NSGSDPVNTN RQWMAPSSSP APMEYFSSGL ILGSGQTHFP  240
IQTNSHPFSS ISDHHHQHHP HQEFSFVPDH LISPAGSNGG GAFNLDFNMS TTSVASTGFS  300
GFNRGTLQSN STNHHHHHQS FLANLQRFPS SEGGGGPQFL FGTGALPAEN QHPHHNNNNN  360
HQFQLYYENG CRNSDQKGKG KN*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	7e-24	61	115	1	55	Putative transcription factor PCF6
5zkt_B	7e-24	61	115	1	55	Putative transcription factor PCF6
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.16645	1e-168	root

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: During flower development, first observed throughout the floral meristem. Later expressed in rapidly growing floral primordia. Detected to a lower extent in vegetative primordia. During flower development, first observed throughout the floral meristem. Expressed during ovule development (PubMed:25378179). {ECO:0000269\|PubMed:10363373, ECO:0000269\|PubMed:25378179}.
Uniprot	TISSUE SPECIFICITY: Expressed in cotyledons, particularly in the vascular region, in leaves, roots, buds, flowers and immature siliques. {ECO:0000269\|PubMed:17307931}.

Functional Description ? help Back to Top
Source	Description
UniProt	Plays 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). Participates in ovule develpment (PubMed:25378179). Participates in ovule develpment (PubMed:25378179). Promotes light-regulated transcription of CHS, CAB, HYH and HY5. Regulates positively photomorphogenesis (e.g. hypocotyl elongation inhibition and cotyledon opening in response to blue light) (PubMed:26596765). {ECO:0000269\|PubMed:12931144, ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:25378179, ECO:0000269\|PubMed:26596765}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00017146001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by the miRNA miR-JAW (PubMed:12931144). Induced by blue light. Stabilized by light but labile in darkness due to proteasome-dependent proteolysis (at protein level) (PubMed:26596765). {ECO:0000269\|PubMed:12931144, ECO:0000269\|PubMed:26596765}.

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	AC189553	0.0	AC189553.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH006A08, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013599182.1	0.0	PREDICTED: transcription factor TCP2-like
Swissprot	Q93V43	0.0	TCP2_ARATH; Transcription factor TCP2
TrEMBL	A0A078J1D4	0.0	A0A078J1D4_BRANA; BnaA03g58260D protein
STRING	Bo7g105960.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7615	25	39

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G18390.2	1e-136	TEOSINTE BRANCHED 1, cycloidea and PCF transcription factor 2

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] 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] Bresso EG,Chorostecki U,Rodriguez RE,Palatnik JF,Schommer C Spatial Control of Gene Expression by miR319-Regulated TCP Transcription Factors in Leaf Development. Plant Physiol., 2018. 176(2): p. 1694-1708 [PMID:29133375]