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

GSBRNA2T00025745001

Common Name

GSBRNA2T00025745001

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: 314aa MW: 35099.3 Da PI: 8.656

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00025745001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	103.7	3e-32	47	147	2	123
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssaseceaesssssasnsssgkaa 91 g+kdrhsk+ T++g+RdRR+Rls+ +a++f+dLqd+LGfd++sk++eWL+++a +i l+ +++ + GSBRNA2T00025745001 47 SGGKDRHSKVLTSKGLRDRRIRLSVATAIQFYDLQDRLGFDQPSKAVEWLINAASDSISNLNPIDTNFDQ-------------------- 116 689***********************************************************99443331.................... PP TCP 92 ksaakskksqksaasalnlak.esrakararar 123 + + +ks++s++s l+l++ esr kar+r GSBRNA2T00025745001 117 --TLSLSKSSTSESSLLSLSRtESRGKARERTA 147 ..1233333333333444444344444443321 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	6.5E-29	48	153	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	30.424	49	107	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 314 aa Download sequence Send to blast
MEDDDDIETQ QQQQQTSRKL QRLSSDKTET RDWSNPSSRI IRVSRASGGK DRHSKVLTSK 60 GLRDRRIRLS VATAIQFYDL QDRLGFDQPS KAVEWLINAA SDSISNLNPI DTNFDQTLSL 120 SKSSTSESSL LSLSRTESRG KARERTAKDK DLQSSFTQLL TRGFDEPNRS WTGGGSTDCF 180 NPVQLMPNSN SLNHRQEPSL NHHSQNQYSF LPNYNFGISS SDSPGEAGCY SSRGTLQSNS 240 QPLFLNNNKN INQRSISSSS SSSSPMDSQS ISFFMAPPLH HHSPQLPEAF DGRLYLYYGE 300 GNRSSDDKGK ERR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	2e-19	54	107	1	54	Putative transcription factor PCF6
5zkt_B	2e-19	54	107	1	54	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	GSBRNA2T00025745001

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	AK353156	6e-63	AK353156.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-21-I20.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013622999.1	0.0	PREDICTED: transcription factor TCP24
Refseq	XP_013623000.1	0.0	PREDICTED: transcription factor TCP24
Refseq	XP_013623001.1	0.0	PREDICTED: transcription factor TCP24
Swissprot	Q9C758	1e-131	TCP24_ARATH; Transcription factor TCP24
TrEMBL	A0A078J4Z0	0.0	A0A078J4Z0_BRANA; BnaCnng34520D protein
STRING	Bo3g147760.1	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-121	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] 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]