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

Csa19g021690.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina

Family

TCP

Protein Properties

Length: 452aa MW: 49645.5 Da PI: 7.316

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa19g021690.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	121.1	1.3e-37	49	236	2	118
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt...................ssssasec.... 73 +g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LGfd++sk+++WL+++ak++i+el+++ ++++s+ Csa19g021690.1 49 TGRKDRHSKVCTAKGPRDRRVRLSAHTAIQFYDVQDRLGFDRPSKAVDWLIKKAKTSIDELAELppwnpadairlaaanakprRTPAKSQIlpsp 143 79************************************************************************999998887333333335544 PP TCP 74 eaesssssas...nsssg...............................................kaaksaa.kskksqksaasalnlakesrak 117 +++++++++ + g +a ++++ + ++ ++++ ++n+++++++ Csa19g021690.1 144 PPQQQQQQQQqlqF---GvgfdgggtehpssnnnenessflppsmdsdsiadtiksffpvvgsltEAPPNHHhQLMHNYHHHQLMHNYHHHHQHP 235 33333333331330...244544444444445566677788888888888888888888888777444444447777777777777777766654 PP TCP 118 a 118 Csa19g021690.1 236 P 236 4 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	6.6E-32	49	153	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	34.016	51	109	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 452 aa Download sequence Send to blast
MSDEFLHPPA PPPPRPPSSM RHHRATSDSA DGGCGEIVEV QGGHIVRSTG RKDRHSKVCT 60 AKGPRDRRVR LSAHTAIQFY DVQDRLGFDR PSKAVDWLIK KAKTSIDELA ELPPWNPADA 120 IRLAAANAKP RRTPAKSQIL PSPPPQQQQQ QQQQLQFGVG FDGGGTEHPS SNNNENESSF 180 LPPSMDSDSI ADTIKSFFPV VGSLTEAPPN HHHQLMHNYH HHQLMHNYHH HHQHPPDLLS 240 RTNSQNQDLR LSLHSFPDGP PSLLHNHNHH HHHTSASASE PVLFYGQSNP LGFDTSNSVS 300 WEQQSSEFGR IQRLVAWNSG GGGGATDTGN GGGFLFAPPP PSSSTTSFQP VFGQSQQLYS 360 QRGPLQSSYS PMIRAWFDPH QHHQSISTDD LNNHHHHLPP PVHQSAIPGI GLASGEFASG 420 IRIPARFQGQ EEEQHDGLTH KPSSASSISR H*

Sequence ? help Back to Top

Protein Sequence Length: 452 aa Download sequence Send to blast

MSDEFLHPPA PPPPRPPSSM RHHRATSDSA DGGCGEIVEV QGGHIVRSTG RKDRHSKVCT  60
AKGPRDRRVR LSAHTAIQFY DVQDRLGFDR PSKAVDWLIK KAKTSIDELA ELPPWNPADA  120
IRLAAANAKP RRTPAKSQIL PSPPPQQQQQ QQQQLQFGVG FDGGGTEHPS SNNNENESSF  180
LPPSMDSDSI ADTIKSFFPV VGSLTEAPPN HHHQLMHNYH HHQLMHNYHH HHQHPPDLLS  240
RTNSQNQDLR LSLHSFPDGP PSLLHNHNHH HHHTSASASE PVLFYGQSNP LGFDTSNSVS  300
WEQQSSEFGR IQRLVAWNSG GGGGATDTGN GGGFLFAPPP PSSSTTSFQP VFGQSQQLYS  360
QRGPLQSSYS PMIRAWFDPH QHHQSISTDD LNNHHHHLPP PVHQSAIPGI GLASGEFASG  420
IRIPARFQGQ EEEQHDGLTH KPSSASSISR H*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	3e-20	56	109	1	54	Putative transcription factor PCF6
5zkt_B	3e-20	56	109	1	54	Putative transcription factor PCF6
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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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa19g021690.1

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK316704	0.0	AK316704.1 Arabidopsis thaliana AT3G15030 mRNA, complete cds, clone: RAFL06-89-F15.
GenBank	AP000370	0.0	AP000370.1 Arabidopsis thaliana genomic DNA, chromosome 3, TAC clone:K15M2.
GenBank	AY094444	0.0	AY094444.1 Arabidopsis thaliana AT3g15030/K15M2_17 mRNA, complete cds.
GenBank	AY149957	0.0	AY149957.1 Arabidopsis thaliana At3g15030/K15M2_17 mRNA, complete cds.
GenBank	CP002686	0.0	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010487316.1	0.0	PREDICTED: transcription factor TCP4
Swissprot	Q8LPR5	0.0	TCP4_ARATH; Transcription factor TCP4
TrEMBL	R0HYP1	0.0	R0HYP1_9BRAS; Uncharacterized protein
STRING	XP_010487316.1	0.0	(Camelina sativa)

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	0.0	TCP family protein

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]