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

XP_009115989.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

GRF

Protein Properties

Length: 382aa MW: 42864.1 Da PI: 7.3008

Description

GRF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009115989.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRC	76.5	2.7e-24	146	190	1	45
WRC 1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 d+epgrC+RtDGKkWRCsr+v++ +k+C+rH+hrgr+rsrk++e+ XP_009115989.1 146 DPEPGRCKRTDGKKWRCSRDVVASYKYCDRHIHRGRNRSRKPVET 190 79****************************************996 PP
2	QLQ	40.7	7.4e-15	78	112	3	37
QLQ 3 FTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 F+ aQ+q+L+ Q+l+y+y++a + P+eLl++i+k XP_009115989.1 78 FSLAQWQELELQALIYRYMLACASFPQELLLPIKK 112 9********************************86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00951	3.9E-7	76	112	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51666	17.329	77	112	IPR014978	Glutamine-Leucine-Glutamine, QLQ
Pfam	PF08880	4.4E-9	78	110	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51667	24.504	146	190	IPR014977	WRC domain
Pfam	PF08879	7.8E-21	147	189	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: 382 aa Download sequence Send to blast
MDLQLKQWRS QQQNESEEQG SATKMSSFFF DQIQSQTETS AAALPLFVPE PTSSSSFSCF 60 TPDSSSSSTR HLKMGNFFSL AQWQELELQA LIYRYMLACA SFPQELLLPI KKSLFHQSPL 120 NFLQHPLQHN FPHHQASWYW GRGAMDPEPG RCKRTDGKKW RCSRDVVASY KYCDRHIHRG 180 RNRSRKPVET TAKTATTNAA TNAASSFVLG EELGHGPNNL FFSSGSSHHS SPHLHLNSHQ 240 SCPSDMNQES NNNKRPYETR SGFSNGRSDD GHILRPFFDD WPRSSDSTSS PLTSSTCHLS 300 ISMPGNPPSD VSLKLSTGNE EEEEANMRNN NNNEREQQQN MNWWSSGGNH NNMGGPLAEA 360 LRSASSTSSV LQQMGISTQV FH

Sequence ? help Back to Top

Protein Sequence Length: 382 aa Download sequence Send to blast

MDLQLKQWRS QQQNESEEQG SATKMSSFFF DQIQSQTETS AAALPLFVPE PTSSSSFSCF  60
TPDSSSSSTR HLKMGNFFSL AQWQELELQA LIYRYMLACA SFPQELLLPI KKSLFHQSPL  120
NFLQHPLQHN FPHHQASWYW GRGAMDPEPG RCKRTDGKKW RCSRDVVASY KYCDRHIHRG  180
RNRSRKPVET TAKTATTNAA TNAASSFVLG EELGHGPNNL FFSSGSSHHS SPHLHLNSHQ  240
SCPSDMNQES NNNKRPYETR SGFSNGRSDD GHILRPFFDD WPRSSDSTSS PLTSSTCHLS  300
ISMPGNPPSD VSLKLSTGNE EEEEANMRNN NNNEREQQQN MNWWSSGGNH NNMGGPLAEA  360
LRSASSTSSV LQQMGISTQV FH

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during the early stages of leaf development and expression decreases with the maturation of the leaf. {ECO:0000269\|PubMed:20023165}.
Uniprot	TISSUE SPECIFICITY: Strongly expressed in actively growing and developing tissues, such as roots, upper stems, and shoot tips containing the shoot apical meristem (SAM) and flower buds. Also expressed in mature flowers, but weakly expressed in mature stems and leaves. {ECO:0000269\|PubMed:12974814}.

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. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009115989.1

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). {ECO:0000269\|PubMed:15200956, ECO:0000269\|PubMed:19453503, ECO:0000269\|PubMed:20023165}.

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_009115989.1	0.0	PREDICTED: growth-regulating factor 4-like
Swissprot	Q8L8A7	1e-180	GRF4_ARATH; Growth-regulating factor 4
TrEMBL	M4CRW4	0.0	M4CRW4_BRARP; Uncharacterized protein
STRING	Bra006956.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1926	26	67

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G52910.1	1e-140	growth-regulating factor 4

Publications ? help Back to Top
Kuijt SJ, et al. Interaction between the GROWTH-REGULATING FACTOR and KNOTTED1-LIKE HOMEOBOX families of transcription factors. Plant Physiol., 2014. 164(4): p. 1952-66 [PMID:24532604] 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]