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

GSBRNA2T00108683001

Common Name

GSBRNA2T00108683001, LOC106372076

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: 318aa MW: 35046.1 Da PI: 8.1312

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00108683001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	117	2.4e-36	46	162	2	135
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssaseceaesssssasnsssgkaa 91 g+kdrhsk+ T++g+RdRR+Rls+ +a++f+dLqd+LGfd++sk++eWL+++a +i el+ ++s + a GSBRNA2T00108683001 46 SGGKDRHSKVLTSKGLRDRRIRLSVATAIQFYDLQDRLGFDQPSKAVEWLINAAADSISELPPINTSFDQ------------------AL 117 689**********************************************************9555552..................22 PP TCP 92 ksaakskksqksaasalnlak.esrakarararertrekmriknk 135 + +++ +s +s++s l+l++ esr kar+rarert+ ++ ++ + GSBRNA2T00108683001 118 SLSKSACSSGTSESSLLSLSRtESRGKARERARERTATDKDKDLQ 162 2223344555666777999999************998877655 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	4.4E-33	47	129	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	31.802	48	106	IPR017887	Transcription factor TCP subgroup
PROSITE profile	PS51370	9.328	139	159	IPR017888	CYC/TB1, R domain

Sequence ? help Back to Top
Protein Sequence Length: 318 aa Download sequence Send to blast
MEVDDDIDAQ QQTSRKLQRI SSDNDKNGMR DWNNPSSRII RVSRASGGKD RHSKVLTSKG 60 LRDRRIRLSV ATAIQFYDLQ DRLGFDQPSK AVEWLINAAA DSISELPPIN TSFDQALSLS 120 KSACSSGTSE SSLLSLSRTE SRGKARERAR ERTATDKDKD LQNAQSSFTQ LLTGGFDEPN 180 RNWIGGSSSD CFTPVQLIPS PSSSSSLHHY NNSNHRQETS LNHHQNHFSF VPDYNFGISS 240 SDSPGAAAVN GGCYTSRGTL QSNSHSLFLN NNNVNQRATP PPLDHHNHQL PATFDGRLYL 300 YYGEGNRSSD DKGKDGR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	2e-21	53	107	1	55	Putative transcription factor PCF6
5zkt_B	2e-21	53	107	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, roots, stems, buds, flowers and 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). In association with ABAP1, exerts a negative role in cell proliferation in leaves, possibly by inhibiting mitotic DNA replication. Participates in ovule develpment (PubMed:25378179). {ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:18818695, ECO:0000269\|PubMed:25378179}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00108683001

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_013586014.1	0.0	PREDICTED: transcription factor TCP24-like
Refseq	XP_013586016.1	0.0	PREDICTED: transcription factor TCP24-like
Refseq	XP_013667658.1	0.0	transcription factor TCP24
Refseq	XP_013667659.1	0.0	transcription factor TCP24
Refseq	XP_022558608.1	0.0	transcription factor TCP24
Swissprot	Q9C758	1e-143	TCP24_ARATH; Transcription factor TCP24
TrEMBL	A0A0D3CES1	0.0	A0A0D3CES1_BRAOL; Uncharacterized protein
STRING	Bo5g062580.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13840	17	26

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G30210.2	1e-117	TCP family protein

Link Out ? help Back to Top
Entrez Gene	106372076

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] Wang H,Mao Y,Yang J,He Y TCP24 modulates secondary cell wall thickening and anther endothecium development. Front Plant Sci, 2015. 6: p. 436 [PMID:26157444] Zhu P, et al. Arabidopsis small nucleolar RNA monitors the efficient pre-rRNA processing during ribosome biogenesis. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(42): p. 11967-11972 [PMID:27708161]