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

Ciclev10015871m

Common Name

CICLE_v10015871mg

Organism

Citrus clementina

Taxonomic ID

85681

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus

Family

TCP

Protein Properties

Length: 335aa MW: 36355.9 Da PI: 7.063

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10015871m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	117.4	1.8e-36	22	138	2	108
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt........ssssasec.....eaesssssa 82 +g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++ak +i++l+++ ++++ + + +ss+ + Ciclev10015871m 22 TGRKDRHSKVYTSKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKSSIDKLAELppwqpstsNNNA---AteaepNMGSSEMAI 112 79**************************************************************988864432222...222344444555555 PP TCP 83 snsssgkaaksaakskksqksaasal 108 +++s+++ +++ +++ +++a++ + Ciclev10015871m 113 QEQSESSGYSFQIHRQLGDHNANNDS 138 55555544444445555555544444 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	1.1E-32	22	127	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	32.561	24	82	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 335 aa Download sequence Send to blast
MGMKGTEGEI VQVEGGHIVR STGRKDRHSK VYTSKGPRDR RVRLSAHTAI QFYDVQDRLG 60 YDRPSKAVDW LIKKAKSSID KLAELPPWQP STSNNNAATE AEPNMGSSEM AIQEQSESSG 120 YSFQIHRQLG DHNANNDSTF MSPPPLDTDA IADTIKSFFP TSTTASAINF QNYPAGILTR 180 SANPTEDLGL SLHTAFQDPG LIHGQSRGDT SHTTSADQTP FAGSAPVGFD SSFQRMLAWN 240 NETSAETRGT GGFLFNSSSL SQQAALAFRG PLQSSFTQSV RAWDDIPVGK THEIQQSSVF 300 GMPAGFNIPA RIHGQDHHQH SNRPSSSSPN NSHR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	3e-22	29	82	1	54	Putative transcription factor PCF6
5zkt_B	3e-22	29	82	1	54	Putative transcription factor PCF6
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Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ccl.22988	0.0	abscission zone\| flower

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in cotyledons during embryogenesis. Expressed during ovule development (PubMed:25378179). {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	Transcription factor playing 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) (PubMed:12931144, PubMed:17307931). Required during early steps of embryogenesis (PubMed:15634699). Participates in ovule develpment (PubMed:25378179). Activates LOX2 expression by binding to the 5'-GGACCA-3' motif found in its promoter (PubMed:18816164). {ECO:0000269\|PubMed:12931144, ECO:0000269\|PubMed:15634699, ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:18816164, ECO:0000269\|PubMed:25378179}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by the miRNA miR-JAW/miR319 (PubMed:12931144, PubMed:18816164). {ECO:0000269\|PubMed:12931144, ECO:0000269\|PubMed:18816164}.

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_006446753.1	0.0	transcription factor TCP4
Swissprot	Q8LPR5	2e-76	TCP4_ARATH; Transcription factor TCP4
TrEMBL	A0A2H5QQ93	0.0	A0A2H5QQ93_CITUN; Uncharacterized protein
TrEMBL	A0A2H5QQ98	0.0	A0A2H5QQ98_CITUN; Uncharacterized protein
TrEMBL	V4THU7	0.0	V4THU7_9ROSI; Uncharacterized protein
STRING	XP_006446753.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2408	27	71

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G15030.3	7e-74	TCP family protein

Link Out ? help Back to Top
Phytozome	Ciclev10015871m
Entrez Gene	18051522

Publications ? help Back to Top
Schommer C, et al. Control of jasmonate biosynthesis and senescence by miR319 targets. PLoS Biol., 2008. 6(9): p. e230 [PMID:18816164] Ju Y, et al. Arabidopsis JINGUBANG Is a Negative Regulator of Pollen Germination That Prevents Pollination in Moist Environments. Plant Cell, 2016. 28(9): p. 2131-2146 [PMID:27468890] Challa KR,Aggarwal P,Nath U Activation of YUCCA5 by the Transcription Factor TCP4 Integrates Developmental and Environmental Signals to Promote Hypocotyl Elongation in Arabidopsis. Plant Cell, 2016. 28(9): p. 2117-2130 [PMID:27597774] Alvarez JP,Furumizu C,Efroni I,Eshed Y,Bowman JL Active suppression of a leaf meristem orchestrates determinate leaf growth. Elife, 2017. [PMID:27710768] Li J, et al. RABBIT EARS regulates the transcription of TCP4 during petal development in Arabidopsis. J. Exp. Bot., 2016. 67(22): p. 6473-6480 [PMID:27838638] Sun X, et al. Activation of secondary cell wall biosynthesis by miR319-targeted TCP4 transcription factor. Plant Biotechnol. J., 2017. 15(10): p. 1284-1294 [PMID:28233945] Kubota A, et al. TCP4-dependent induction of CONSTANS transcription requires GIGANTEA in photoperiodic flowering in Arabidopsis. PLoS Genet., 2017. 13(6): p. e1006856 [PMID:28628608] 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] Vadde BVL,Challa KR,Nath U The TCP4 transcription factor regulates trichome cell differentiation by directly activating GLABROUS INFLORESCENCE STEMS in Arabidopsis thaliana. Plant J., 2018. 93(2): p. 259-269 [PMID:29165850] Challa KR,Rath M,Nath U The CIN-TCP transcription factors promote commitment to differentiation in Arabidopsis leaf pavement cells via both auxin-dependent and independent pathways. PLoS Genet., 2019. 15(2): p. e1007988 [PMID:30742619]