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

Medtr2g090960.1

Common Name

MTR_027s0007, MTR_2g090960

Organism

Medicago truncatula

Taxonomic ID

3880

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Medicago

Family

TCP

Protein Properties

Length: 330aa MW: 36325.6 Da PI: 6.5094

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Medtr2g090960.1	genome	Mt	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	121.7	8.6e-38	21	142	1	111
TCP 1 aagkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt....ssssaseceaesssssasnsssg.. 88 a+g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++ak ai++l ++ + ++++e+ +++++++n+ + Medtr2g090960.1 21 ATGRKDRHSKVYTAKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKSAIDKLDQLppwnP--IPNATEELQEEENNNNN--Ave 110 589**************************************************************55432..22233222333333322..133 PP TCP 89 ........kaaksaa.kskksqksaasalnla 111 ++++s+ + +++++++++++ + Medtr2g090960.1 111 tnemviaaEQSESSGyNLQQNNHHNHNHSGFI 142 56678877444444446666666666666655 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	1.6E-34	22	137	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	33.172	24	82	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 330 aa Download sequence Send to blast
MGMKSTGGEI VQVQGGHIVR ATGRKDRHSK VYTAKGPRDR RVRLSAHTAI QFYDVQDRLG 60 YDRPSKAVDW LIKKAKSAID KLDQLPPWNP IPNATEELQE EENNNNNAVE TNEMVIAAEQ 120 SESSGYNLQQ NNHHNHNHSG FIQSTIDNDA IAFFPTTSVG ESMNFQSYSS DIISRTNNST 180 QDLGLSLHSF QDNSASNDQT LFSGSNPVGF DANYNRIVNW NTADMNRTGF MVNSPAFLGQ 240 GSTFSAHRGT LQSSFSPSLR PWNDIPIADA SVDHHNHKSQ QQIHQASIFG SRFLSDALTG 300 FCIPARIQGE DESHGVGSER PSSSSNSHH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	3e-23	29	82	1	54	Putative transcription factor PCF6
5zkt_B	3e-23	29	82	1	54	Putative transcription factor PCF6
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Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Mtr.21615	0.0	glandular trichome

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Medtr2g090960.1

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	AC158498	0.0	AC158498.3 Medicago truncatula chromosome 2 BAC clone mth2-65n13, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013465197.1	0.0	transcription factor TCP4
Swissprot	Q8LPR5	4e-73	TCP4_ARATH; Transcription factor TCP4
TrEMBL	G7ZVJ2	0.0	G7ZVJ2_MEDTR; Putative transcription factor TCP family
STRING	AES83230	0.0	(Medicago truncatula)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1163	34	105

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G15030.3	2e-69	TCP family protein

Link Out ? help Back to Top
Phytozome	Medtr2g090960.1
Entrez Gene	25487743

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] Young ND, et al. The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature, 2011. 480(7378): p. 520-4 [PMID:22089132] 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]