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

ONIVA02G28000.1

Organism

Oryza nivara

Taxonomic ID

4536

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

TCP

Protein Properties

Length: 143aa MW: 15389.6 Da PI: 11.653

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ONIVA02G28000.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	111.4	1.3e-34	18	110	3	89
TCP 3 gkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt........ssssaseceaesssssasnsssg 88 +k+++++++hTkv+gR+RR+R++a+caa +F+L++eL ++++s+t++WLlqq +pai ++gt +s ++ +c + s s++++++ ONIVA02G28000.1 18 PKRSSNKDRHTKVDGRGRRIRMPALCAAWIFQLTRELDHKSNSETVQWLLQQVEPAIVTAMGTgvgtdiqgPSLPSPNC---ALSRSHHHHHHM 108 6999***********************************************************8888777645555556...333333333333 PP TCP 89 .k 89 + ONIVA02G28000.1 109 wA 110 31 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	1.2E-26	22	88	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	25.414	23	77	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 143 aa Download sequence Send to blast
MQVVAAVTGK RRMQGLGPKR SSNKDRHTKV DGRGRRIRMP ALCAAWIFQL TRELDHKSNS 60 ETVQWLLQQV EPAIVTAMGT GVGTDIQGPS LPSPNCALSR SHHHHHHMWA AAAAPPAASA 120 AFAGATSGSR PCSPATWRQP CRG

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that binds to the site II motif (3'-TGGGCC/T-5') in the promoter of PCNA-2 and to 3'-GCCCG/A-5' elements in the promoters of cyclin CYCB1-1 and ribosomal protein genes. {ECO:0000269\|PubMed:12631321, ECO:0000269\|PubMed:16123132}.

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	AP004133	0.0	AP004133.3 Oryza sativa Japonica Group genomic DNA, chromosome 2, BAC clone:OJ1112_G03.
GenBank	AP004768	0.0	AP004768.3 Oryza sativa Japonica Group genomic DNA, chromosome 2, PAC clone:P0010C01.
GenBank	AP014958	0.0	AP014958.1 Oryza sativa Japonica Group DNA, chromosome 2, cultivar: Nipponbare, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015624510.2	4e-62	LOW QUALITY PROTEIN: transcription factor TCP20
Swissprot	Q9LSD5	1e-33	TCP20_ARATH; Transcription factor TCP20
TrEMBL	A0A0E0GAB4	1e-100	A0A0E0GAB4_ORYNI; Uncharacterized protein
STRING	ONIVA02G28000.1	1e-101	(Oryza nivara)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2864	32	69

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G27010.1	1e-34	TCP family protein

Publications ? help Back to Top
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] Wu JF, et al. LWD-TCP complex activates the morning gene CCA1 in Arabidopsis. Nat Commun, 2016. 7: p. 13181 [PMID:27734958] Guan P, et al. Interacting TCP and NLP transcription factors control plant responses to nitrate availability. Proc. Natl. Acad. Sci. U.S.A., 2017. 114(9): p. 2419-2424 [PMID:28202720] Guan P Dancing with Hormones: A Current Perspective of Nitrate Signaling and Regulation in Arabidopsis. Front Plant Sci, 2017. 8: p. 1697 [PMID:29033968] Zhang N, et al. MOS1 functions closely with TCP transcription factors to modulate immunity and cell cycle in Arabidopsis. Plant J., 2018. 93(1): p. 66-78 [PMID:29086441] 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] Konishi N,Okubo T,Yamaya T,Hayakawa T,Minamisawa K Nitrate Supply-Dependent Shifts in Communities of Root-Associated Bacteria in Arabidopsis. Microbes Environ., 2017. 32(4): p. 314-323 [PMID:29187692]