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

Csa07g052930.1

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

GRF

Protein Properties

Length: 468aa MW: 50558.7 Da PI: 9.4428

Description

GRF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa07g052930.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRC	78.5	6.5e-25	199	243	1	45
WRC 1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 d+epgrCrRtDGKkWRCsr++++++k+CErH++rgr+rsrk++e Csa07g052930.1 199 DPEPGRCRRTDGKKWRCSRDAVPDQKYCERHINRGRHRSRKPVEG 243 79****************************************985 PP
2	QLQ	51.7	2.6e-18	135	171	1	37
QLQ 1 saFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 ++F+ +Q+++L++Q+l+yKy+ an+PvP+ Ll+ ++k Csa07g052930.1 135 GPFSLTQWAELEQQALIYKYITANVPVPSSLLLSLKK 171 59******************************99875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00951	1.3E-10	135	171	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51666	20.723	136	171	IPR014978	Glutamine-Leucine-Glutamine, QLQ
Pfam	PF08880	1.9E-12	136	168	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51667	25.954	199	243	IPR014977	WRC domain
Pfam	PF08879	2.9E-21	200	242	IPR014977	WRC domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0005524	Molecular Function	ATP binding

Sequence ? help Back to Top
Protein Sequence Length: 468 aa Download sequence Send to blast
MDLGVRVSSH ETGSSPGQTE LGSGFINNNK QERSGFDGED CWRSSKLSRT STDDGFSSST 60 STAAKTLSFH QGIPLLRSTT IDPRRGQEHM LSFSSASDKS DVSPYLQYCR NSGYGLGGMM 120 NTSSMHGNLL TGVKGPFSLT QWAELEQQAL IYKYITANVP VPSSLLLSLK KSFFPYGSLP 180 PNSFGWGSFH LGFSGGNMDP EPGRCRRTDG KKWRCSRDAV PDQKYCERHI NRGRHRSRKP 240 VEGQNGHNTN AAAASAAAST AAAVSKAAGT SGVAMRGLDN NNNSLAAAVR THHHANNNQS 300 TDSLATRVQN SRAASVFPTA MNLQPKDPHP KQTNNNPFEF GLISSDSLLN PSHKQASYGN 360 SSKGFGSYLD FSNQAKHSGN HNNDDSWPEE LKSDWTQLSM SIPMAPSSPV QDKLPLSPLK 420 LSREFDLGLG VNTEFLEPGK KANNWIPISW GNNNSMGGPL GEVXLLK*

Sequence ? help Back to Top

Protein Sequence Length: 468 aa Download sequence Send to blast

MDLGVRVSSH ETGSSPGQTE LGSGFINNNK QERSGFDGED CWRSSKLSRT STDDGFSSST  60
STAAKTLSFH QGIPLLRSTT IDPRRGQEHM LSFSSASDKS DVSPYLQYCR NSGYGLGGMM  120
NTSSMHGNLL TGVKGPFSLT QWAELEQQAL IYKYITANVP VPSSLLLSLK KSFFPYGSLP  180
PNSFGWGSFH LGFSGGNMDP EPGRCRRTDG KKWRCSRDAV PDQKYCERHI NRGRHRSRKP  240
VEGQNGHNTN AAAASAAAST AAAVSKAAGT SGVAMRGLDN NNNSLAAAVR THHHANNNQS  300
TDSLATRVQN SRAASVFPTA MNLQPKDPHP KQTNNNPFEF GLISSDSLLN PSHKQASYGN  360
SSKGFGSYLD FSNQAKHSGN HNNDDSWPEE LKSDWTQLSM SIPMAPSSPV QDKLPLSPLK  420
LSREFDLGLG VNTEFLEPGK KANNWIPISW GNNNSMGGPL GEVXLLK*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that plays a role in the regulation of cell expansion in leaf and cotyledons tissues. Component of a network formed by miR396, the GRFs and their interacting factors (GIFs) acting in the regulation of meristem function, at least partially through the control of cell proliferation. microRNA396-GRF1/GRF3 regulatory module acts as a developmental regulator in the reprogramming of root cells during cyst nematode infection, leading to the formation of the syncytium. {ECO:0000269\|PubMed:12974814, ECO:0000269\|PubMed:15326298, ECO:0000269\|PubMed:22419826, ECO:0000269\|PubMed:22751317}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa07g052930.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: microRNA 396 (miR396a or miR396b) negatively regulates growth-regulating factors (GRF1-4 and GRF7-9). Up-regulated in response to cyst nematode infection. {ECO:0000269\|PubMed:15200956, ECO:0000269\|PubMed:19453503, ECO:0000269\|PubMed:20023165, ECO:0000269\|PubMed:22419826}.

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	AB493560	0.0	AB493560.1 Arabidopsis thaliana At2g22840 mRNA for hypothetical protein, partial cds, clone: RAAt2g22840.
GenBank	AY102634	0.0	AY102634.1 Arabidopsis thaliana transcription activator (GRF1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010419272.1	0.0	PREDICTED: growth-regulating factor 1-like
Swissprot	O81001	0.0	GRF1_ARATH; Growth-regulating factor 1
TrEMBL	A0A178VNQ3	0.0	A0A178VNQ3_ARATH; GRF1
STRING	XP_010419272.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1454	28	86

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G22840.1	0.0	growth-regulating factor 1

Publications ? help Back to Top
Casadevall R,Rodriguez RE,Debernardi JM,Palatnik JF,Casati P Repression of growth regulating factors by the microRNA396 inhibits cell proliferation by UV-B radiation in Arabidopsis leaves. Plant Cell, 2013. 25(9): p. 3570-83 [PMID:24076976] Liu J,Rice JH,Chen N,Baum TJ,Hewezi T Synchronization of developmental processes and defense signaling by growth regulating transcription factors. PLoS ONE, 2014. 9(5): p. e98477 [PMID:24875638] Cao Y,Han Y,Jin Q,Lin Y,Cai Y Comparative Genomic Analysis of the GRF Genes in Chinese Pear (Pyrus bretschneideri Rehd), Poplar (Populous), Grape (Vitis vinifera), Arabidopsis and Rice (Oryza sativa). Front Plant Sci, 2016. 7: p. 1750 [PMID:27933074]