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

Csa03g018730.1

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

GRAS

Protein Properties

Length: 532aa MW: 58327.8 Da PI: 5.1293

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa03g018730.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	444.9	5.4e-136	167	527	1	374
GRAS 1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetsekn.sseelaalklfsevsPilkfs 94 lv++Ll+cAeav+s++l+la+al++++ la ++ +m+++a+yf+eALa+r++r l+ps+++ ++ s++l+ f+e++P+lkf+ Csa03g018730.1 167 LVHALLACAEAVQSENLTLAEALVKQIGFLAVSQIGAMRKVATYFAEALARRIYR--------LSPSQSPIDHsLSDTLQ--MHFYETCPYLKFA 251 689**************************************************........66777764441334433..35******* PP GRAS 95 hltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledl 189 h+taNqaIlea++g++rvH+iDf++sqGlQWpaL+qaLa Rp+gpp +R+Tg+g+p++++ + l+e+g +La++Ae+++v+fe++ +va++l+dl Csa03g018730.1 252 HFTANQAILEAFQGKKRVHVIDFSMSQGLQWPALMQALALRPGGPPVFRLTGIGPPAPDNFDYLHEVGCKLAHLAEAIHVEFEYRGFVANTLADL 346 ******************************************************************************************* PP GRAS 190 eleeLrvkp..gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseer 282 + ++L+++p E++aVn+v++lh+ll +++++++ vL +v++++P++++vveqe++hns+ Fl+rf+e+l+yys+lfdsle s ++ Csa03g018730.1 347 DASMLELRPseIESVAVNSVFELHKLLGRPGAIDK----VLGVVNQIKPEIFTVVEQESNHNSPVFLDRFTESLHYYSTLFDSLEGV---PSGQD 434 ****98889**********99998888....*****************************************998...799 PP GRAS 283 ikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374 +++++++lg++i+nvvac g +r+erhetl++Wr+r+++aGF++++l+++a kqa++ll+ ++ ++gyrvee++g+l+lgW++rpL+++SaW+ Csa03g018730.1 435 KVMSEVYLGKQICNVVACDGPDRVERHETLSQWRNRFGSAGFSAAHLGSNAFKQASMLLALFNgGEGYRVEESDGCLMLGWHTRPLIATSAWK 527 ********************************************************************************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF12041	1.7E-33	21	88	IPR021914	Transcriptional factor DELLA, N-terminal
SMART	SM01129	7.0E-42	21	94	No hit	No description
PROSITE profile	PS50985	65	141	506	IPR005202	Transcription factor GRAS
Pfam	PF03514	1.9E-133	167	527	IPR005202	Transcription factor GRAS

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006808	Biological Process	regulation of nitrogen utilization
GO:0009723	Biological Process	response to ethylene
GO:0009737	Biological Process	response to abscisic acid
GO:0009863	Biological Process	salicylic acid mediated signaling pathway
GO:0009867	Biological Process	jasmonic acid mediated signaling pathway
GO:0009938	Biological Process	negative regulation of gibberellic acid mediated signaling pathway
GO:0010187	Biological Process	negative regulation of seed germination
GO:0010218	Biological Process	response to far red light
GO:0010233	Biological Process	phloem transport
GO:0042538	Biological Process	hyperosmotic salinity response
GO:2000033	Biological Process	regulation of seed dormancy process
GO:2000377	Biological Process	regulation of reactive oxygen species metabolic process
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 532 aa Download sequence Send to blast
MKRDHQDNMK EEEDDCNNGM DELLAVLGYK VRSSEMADVA QKLEQLEVMM SNVQEHDLSH 60 LATETVHYNP AELYTWLDSM LSDLNPPSSN SDYDLKAIPG DAILNHHFAV DLSSSSNHGG 120 GGGDANATTN KRLKCSNGTT VATATTATGE STRPVVLVDS QENGVRLVHA LLACAEAVQS 180 ENLTLAEALV KQIGFLAVSQ IGAMRKVATY FAEALARRIY RLSPSQSPID HSLSDTLQMH 240 FYETCPYLKF AHFTANQAIL EAFQGKKRVH VIDFSMSQGL QWPALMQALA LRPGGPPVFR 300 LTGIGPPAPD NFDYLHEVGC KLAHLAEAIH VEFEYRGFVA NTLADLDASM LELRPSEIES 360 VAVNSVFELH KLLGRPGAID KVLGVVNQIK PEIFTVVEQE SNHNSPVFLD RFTESLHYYS 420 TLFDSLEGVP SGQDKVMSEV YLGKQICNVV ACDGPDRVER HETLSQWRNR FGSAGFSAAH 480 LGSNAFKQAS MLLALFNGGE GYRVEESDGC LMLGWHTRPL IATSAWKLST D*

Sequence ? help Back to Top

Protein Sequence Length: 532 aa Download sequence Send to blast

MKRDHQDNMK EEEDDCNNGM DELLAVLGYK VRSSEMADVA QKLEQLEVMM SNVQEHDLSH  60
LATETVHYNP AELYTWLDSM LSDLNPPSSN SDYDLKAIPG DAILNHHFAV DLSSSSNHGG  120
GGGDANATTN KRLKCSNGTT VATATTATGE STRPVVLVDS QENGVRLVHA LLACAEAVQS  180
ENLTLAEALV KQIGFLAVSQ IGAMRKVATY FAEALARRIY RLSPSQSPID HSLSDTLQMH  240
FYETCPYLKF AHFTANQAIL EAFQGKKRVH VIDFSMSQGL QWPALMQALA LRPGGPPVFR  300
LTGIGPPAPD NFDYLHEVGC KLAHLAEAIH VEFEYRGFVA NTLADLDASM LELRPSEIES  360
VAVNSVFELH KLLGRPGAID KVLGVVNQIK PEIFTVVEQE SNHNSPVFLD RFTESLHYYS  420
TLFDSLEGVP SGQDKVMSEV YLGKQICNVV ACDGPDRVER HETLSQWRNR FGSAGFSAAH  480
LGSNAFKQAS MLLALFNGGE GYRVEESDGC LMLGWHTRPL IATSAWKLST D*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	1e-64	162	526	14	378	Protein SCARECROW
5b3h_A	1e-64	162	526	13	377	Protein SCARECROW
5b3h_D	1e-64	162	526	13	377	Protein SCARECROW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional regulator that acts as a repressor of the gibberellin (GA) signaling pathway. Transcription coactivator of the zinc finger transcription factors GAF1/IDD2 and ENY/IDD1 in regulation of gibberellin homeostasis and signaling (PubMed:25035403). No effect of the BOI proteins on its stability. Probably acts by participating in large multiprotein complexes that repress transcription of GA-inducible genes. Positively regulates XERICO expression. In contrast to RGA, it is less sensitive to GA. Its activity is probably regulated by other phytohormones such as auxin and ethylene. {ECO:0000269\|PubMed:11487693, ECO:0000269\|PubMed:11606551, ECO:0000269\|PubMed:11606552, ECO:0000269\|PubMed:14973286, ECO:0000269\|PubMed:15128937, ECO:0000269\|PubMed:16034591, ECO:0000269\|PubMed:17933900, ECO:0000269\|PubMed:25035403, ECO:0000269\|PubMed:9389651}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa03g018730.1

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	AC006917	0.0	AC006917.6 Genomic sequence for Arabidopsis thaliana BAC F10B6 from chromosome I, complete sequence.
GenBank	AY058194	0.0	AY058194.1 Arabidopsis thaliana At1g14920/F10B6_15 mRNA, complete cds.
GenBank	AY142002	0.0	AY142002.1 Arabidopsis thaliana At1g14920/F10B6_15 mRNA, complete cds.
GenBank	CP002684	0.0	CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
GenBank	GQ177378	0.0	GQ177378.1 Arabidopsis thaliana ecotype Ei-2 GAI gene, complete sequence.
GenBank	GQ177385	0.0	GQ177385.1 Arabidopsis thaliana ecotype Mt-0 GAI gene, complete sequence.
GenBank	GQ177389	0.0	GQ177389.1 Arabidopsis thaliana ecotype Wt-5 GAI gene, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010496659.1	0.0	PREDICTED: DELLA protein GAI
Swissprot	Q9LQT8	0.0	GAI_ARATH; DELLA protein GAI
TrEMBL	R0GWF2	0.0	R0GWF2_9BRAS; Uncharacterized protein
STRING	XP_010496659.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM837	28	121

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G14920.1	0.0	GRAS family protein

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Gallego-Giraldo C, et al. Role of the gibberellin receptors GID1 during fruit-set in Arabidopsis. Plant J., 2014. 79(6): p. 1020-1032 [PMID:24961590] Fukazawa J, et al. DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis. Plant Cell, 2014. 26(7): p. 2920-38 [PMID:25035403] Marín-de la Rosa N, et al. Genome Wide Binding Site Analysis Reveals Transcriptional Coactivation of Cytokinin-Responsive Genes by DELLA Proteins. PLoS Genet., 2015. 11(7): p. e1005337 [PMID:26134422] Shi H,Wei Y,Wang Q,Reiter RJ,He C Melatonin mediates the stabilization of DELLA proteins to repress the floral transition in Arabidopsis. J. Pineal Res., 2016. 60(3): p. 373-9 [PMID:26887824] Lee SA, et al. Interplay between ABA and GA Modulates the Timing of Asymmetric Cell Divisions in the Arabidopsis Root Ground Tissue. Mol Plant, 2016. 9(6): p. 870-84 [PMID:26970019] Qu J,Kang SG,Hah C,Jang JC Molecular and cellular characterization of GA-Stimulated Transcripts GASA4 and GASA6 in Arabidopsis thaliana. Plant Sci., 2016. 246: p. 1-10 [PMID:26993231] Shahnejat-Bushehri S,Nobmann B,Devi Allu A,Balazadeh S JUB1 suppresses Pseudomonas syringae-induced defense responses through accumulation of DELLA proteins. Plant Signal Behav, 2016. 11(6): p. e1181245 [PMID:27159137] Shahnejat-Bushehri S,Tarkowska D,Sakuraba Y,Balazadeh S Arabidopsis NAC transcription factor JUB1 regulates GA/BR metabolism and signalling. Nat Plants, 2016. 2: p. 16013 [PMID:27249348] Wang H, et al. The DELLA-CONSTANS Transcription Factor Cascade Integrates Gibberellic Acid and Photoperiod Signaling to Regulate Flowering. Plant Physiol., 2016. 172(1): p. 479-88 [PMID:27406167] Li W,Wang H,Yu D Arabidopsis WRKY Transcription Factors WRKY12 and WRKY13 Oppositely Regulate Flowering under Short-Day Conditions. Mol Plant, 2016. 9(11): p. 1492-1503 [PMID:27592586] Liu B,De Storme N,Geelen D Gibberellin Induces Diploid Pollen Formation by Interfering with Meiotic Cytokinesis. Plant Physiol., 2017. 173(1): p. 338-353 [PMID:27621423] Matsuoka K, et al. Differential Cellular Control by Cotyledon-Derived Phytohormones Involved in Graft Reunion of Arabidopsis Hypocotyls. Plant Cell Physiol., 2016. 57(12): p. 2620-2631 [PMID:27986917] Zentella R, et al. The Arabidopsis O-fucosyltransferase SPINDLY activates nuclear growth repressor DELLA. Nat. Chem. Biol., 2017. 13(5): p. 479-485 [PMID:28244988] Zhang Y, et al. GA-DELLA pathway is involved in regulation of nitrogen deficiency-induced anthocyanin accumulation. Plant Cell Rep., 2017. 36(4): p. 557-569 [PMID:28275852] Zhang L,Chen L,Yu D Transcription Factor WRKY75 Interacts with DELLA Proteins to Affect Flowering. Plant Physiol., 2018. 176(1): p. 790-803 [PMID:29133369] Nelson SK,Ariizumi T,Steber CM Biology in the Dry Seed: Transcriptome Changes Associated with Dry Seed Dormancy and Dormancy Loss in the Arabidopsis GA-Insensitive sleepy1-2 Mutant. Front Plant Sci, 2017. 8: p. 2158 [PMID:29312402] Liu B,De Storme N,Geelen D Cold-Induced Male Meiotic Restitution in Arabidopsis thaliana Is Not Mediated by GA-DELLA Signaling. Front Plant Sci, 2018. 9: p. 91 [PMID:29459879] Zhang Y, et al. DELLA proteins negatively regulate dark-induced senescence and chlorophyll degradation in Arabidopsis through interaction with the transcription factor WRKY6. Plant Cell Rep., 2018. 37(7): p. 981-992 [PMID:29574486] Felipo-Benavent A, et al. Regulation of xylem fiber differentiation by gibberellins through DELLA-KNAT1 interaction. Development, 2019. [PMID:30389856] Wright DA, et al. Recovery of YAC-end sequences through complementation of an Escherichia coli pyrF mutation. Nucleic Acids Res., 1997. 25(13): p. 2679-80 [PMID:9185581]