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

GSBRNA2T00113586001

Common Name

GSBRNA2T00113586001, LOC106439955

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: 367aa MW: 40739.3 Da PI: 6.6787

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00113586001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	95.7	9.1e-30	67	174	3	89
TCP 3 gkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt........................... 65 g+kdrhsk++T +g+RdRR+Rls+++a++++dLqd+LG+ ++sk ++WLl++ak +++l+ + GSBRNA2T00113586001 67 GGKDRHSKVCTVRGLRDRRIRLSVPTAIQLYDLQDRLGLSQPSKVVDWLLEAAKDDVDKLPPLqfphgfnqmypnlffgnsgigesstst 156 78*************************************************************666666555555555555554443333 PP TCP 66 .....ssssaseceaesssssasnsssg..........k 89 + + GSBRNA2T00113586001 157 safpgT---------------------NlgflesydlgG 174 222220.....................122333333321 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	9.1E-27	68	192	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	29.711	68	126	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 367 aa Download sequence Send to blast
MRSRECDEEE IQAKQEGDHN ENNNHQVNLN NMLQQQQQNQ PSSLSSSRQW TSAFRNPRIV 60 RVSRTFGGKD RHSKVCTVRG LRDRRIRLSV PTAIQLYDLQ DRLGLSQPSK VVDWLLEAAK 120 DDVDKLPPLQ FPHGFNQMYP NLFFGNSGIG ESSTSTSAFP GTNLGFLESY DLGGSSSRTR 180 SRIQETPRES FDLDKGKWIK NDENANHHQD HGFDASHQHF SLTNPYNNSN ASSYYNLGHL 240 QHSLDQSGNN VTVAISNVPS NNNNNNLNLP PPSSAGDGSQ LLFGPPPPAM SSLFPTYPSF 300 LGASHHQHHH VVDGAGNLQL FSSNANTASQ QQMMTGNSSL IRPFHHLMSS NHDTDRHSSD 360 DNDSDS*

Sequence ? help Back to Top

Protein Sequence Length: 367 aa Download sequence Send to blast

MRSRECDEEE IQAKQEGDHN ENNNHQVNLN NMLQQQQQNQ PSSLSSSRQW TSAFRNPRIV  60
RVSRTFGGKD RHSKVCTVRG LRDRRIRLSV PTAIQLYDLQ DRLGLSQPSK VVDWLLEAAK  120
DDVDKLPPLQ FPHGFNQMYP NLFFGNSGIG ESSTSTSAFP GTNLGFLESY DLGGSSSRTR  180
SRIQETPRES FDLDKGKWIK NDENANHHQD HGFDASHQHF SLTNPYNNSN ASSYYNLGHL  240
QHSLDQSGNN VTVAISNVPS NNNNNNLNLP PPSSAGDGSQ LLFGPPPPAM SSLFPTYPSF  300
LGASHHQHHH VVDGAGNLQL FSSNANTASQ QQMMTGNSSL IRPFHHLMSS NHDTDRHSSD  360
DNDSDS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	6e-19	73	127	1	55	Putative transcription factor PCF6
5zkt_B	6e-19	73	127	1	55	Putative transcription factor PCF6
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during ovule development (PubMed:25378179). {ECO:0000269\|PubMed:25378179}.
Uniprot	TISSUE SPECIFICITY: Expressed in cotyledons, particularly in the vascular region, in leaves, 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). {ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:25378179}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00113586001

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_013736975.1	0.0	transcription factor TCP5
Swissprot	Q9FME3	0.0	TCP5_ARATH; Transcription factor TCP5
TrEMBL	A0A398A3F5	0.0	A0A398A3F5_BRACM; Uncharacterized protein
TrEMBL	M4D930	0.0	M4D930_BRARP; Uncharacterized protein
STRING	Bra012990.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3576	27	63

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60970.1	1e-161	TEOSINTE BRANCHED 1, cycloidea and PCF transcription factor 5

Link Out ? help Back to Top
Entrez Gene	106439955

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]