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

BGIOSGA005785-PA

Common Name

OsI_08594

Organism

Oryza sativa subsp. indica

Taxonomic ID

39946

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa

Family

GRF

Protein Properties

Length: 440aa MW: 46762.4 Da PI: 8.0421

Description

GRF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
BGIOSGA005785-PA	genome	RIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRC	77.8	1.1e-24	125	169	1	45
WRC 1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 d+epgrCrRtDGKkWRCs+++ +++k+CErH+hrgr+rsrk++e+ BGIOSGA005785-PA 125 DPEPGRCRRTDGKKWRCSKEAAPDSKYCERHMHRGRNRSRKPVET 169 79****************************************997 PP
2	QLQ	60.7	4.1e-21	64	99	2	37
QLQ 2 aFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 +FTaaQ ++L++Q+l+yKyL+a++PvPp+L+++i++ BGIOSGA005785-PA 64 PFTAAQYEELEQQALIYKYLVAGVPVPPDLVLPIRR 99 9*********************************86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00951	1.7E-11	63	99	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51666	22.879	64	99	IPR014978	Glutamine-Leucine-Glutamine, QLQ
Pfam	PF08880	7.7E-15	64	98	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51667	25.486	125	169	IPR014977	WRC domain
Pfam	PF08879	4.7E-21	126	168	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: 440 aa Download sequence Send to blast
MTMPYASLSP AVADHRSSPA AATASLLPFC RSTPLSAGGG VVAMGEDAPM TARWPPAAAA 60 RLPPFTAAQY EELEQQALIY KYLVAGVPVP PDLVLPIRRG LDSLAARFYN HPALGYGPYF 120 GKKLDPEPGR CRRTDGKKWR CSKEAAPDSK YCERHMHRGR NRSRKPVETQ LVAQSQPPSS 180 VVGSAAAPLA AASNGSSFQN HSLYPAIAGS NGGGGGRNMP SSFGSALGSQ LHMDNAAPYA 240 AVGGGTGKDL RFPECCLFAL PILSGISFQP QKPGTVSIRD FCSGETGVQG LNMALAQYTA 300 YGTRSLADEQ SQLITEAINT SIENPWRLLP SQNSPFPLSS YSQLGALSDL GQNTPSSLSK 360 VQRQPLSFFG NDYAAVDSVK QENQTLRPFF DEWPKGRDSW SDLADENANL SSFSGTQLSI 420 SIPMASSDFS AASSRSTNGD

Sequence ? help Back to Top

Protein Sequence Length: 440 aa Download sequence Send to blast

MTMPYASLSP AVADHRSSPA AATASLLPFC RSTPLSAGGG VVAMGEDAPM TARWPPAAAA  60
RLPPFTAAQY EELEQQALIY KYLVAGVPVP PDLVLPIRRG LDSLAARFYN HPALGYGPYF  120
GKKLDPEPGR CRRTDGKKWR CSKEAAPDSK YCERHMHRGR NRSRKPVETQ LVAQSQPPSS  180
VVGSAAAPLA AASNGSSFQN HSLYPAIAGS NGGGGGRNMP SSFGSALGSQ LHMDNAAPYA  240
AVGGGTGKDL RFPECCLFAL PILSGISFQP QKPGTVSIRD FCSGETGVQG LNMALAQYTA  300
YGTRSLADEQ SQLITEAINT SIENPWRLLP SQNSPFPLSS YSQLGALSDL GQNTPSSLSK  360
VQRQPLSFFG NDYAAVDSVK QENQTLRPFF DEWPKGRDSW SDLADENANL SSFSGTQLSI  420
SIPMASSDFS AASSRSTNGD

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Os.49748	0.0	callus\| panicle\| seed

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	32974001	0.0

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in stems (PubMed:27107174). Expressed in panicles (PubMed:26187814, PubMed:27250747, PubMed:27250749, PubMed:27107174). {ECO:0000269\|PubMed:26187814, ECO:0000269\|PubMed:27107174, ECO:0000269\|PubMed:27250747, ECO:0000269\|PubMed:27250749}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that plays a role in the regulation of meristematic function in leaves, stems and inflorescences (PubMed:24532604). Transcription activator that plays a regulatory role in grain development (PubMed:26187814, PubMed:27250747, PubMed:27250749, PubMed:26936408, PubMed:27107174). Positively regulates grain size by promoting cell division and expansion, leading to increased grain length and width (PubMed:26187814, PubMed:27250747, PubMed:27250749, PubMed:26936408, PubMed:27107174). Positively regulates the expression of genes promoting cell proliferation (PubMed:26187814, PubMed:26936408). Activates the expression of expansin genes to promote cell expansion and grain size (PubMed:27250747). May promote grain size by activating brassinosteroid responses (PubMed:27250747). Component of a network formed by the microRNA396 (miRNA396), the GRFs and their interacting factors (GIFs) acting in the regulation of meristem function, at least partially through the control of cell proliferation (Probable). Component of the miRNA396c-GRF4-GIF1 regulatory module that plays an important role in grain size determination (Probable) (PubMed:27250747, PubMed:27250749, PubMed:27107174). {ECO:0000269\|PubMed:24532604, ECO:0000269\|PubMed:26187814, ECO:0000269\|PubMed:26936408, ECO:0000269\|PubMed:27107174, ECO:0000269\|PubMed:27250747, ECO:0000269\|PubMed:27250749, ECO:0000305\|PubMed:26187814, ECO:0000305\|PubMed:27107174, ECO:0000305\|PubMed:27250747, ECO:0000305\|PubMed:27250749}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: The microRNA396c negatively regulates GRF4 at the transcriptional level. {ECO:0000269\|PubMed:26187814, ECO:0000269\|PubMed:26936408, ECO:0000269\|PubMed:27107174, ECO:0000269\|PubMed:27250747}.

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	AK063983	0.0	AK063983.1 Oryza sativa Japonica Group cDNA clone:001-124-D07, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015624297.1	0.0	growth-regulating factor 4
Swissprot	Q6ZIK5	0.0	GRF4_ORYSJ; Growth-regulating factor 4
TrEMBL	B8AH82	0.0	B8AH82_ORYSI; Uncharacterized protein
STRING	OBART02G29160.1	0.0	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2463	34	76

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G13960.1	7e-46	growth-regulating factor 5

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] 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] Hu J, et al. A Rare Allele of GS2 Enhances Grain Size and Grain Yield in Rice. Mol Plant, 2015. 8(10): p. 1455-65 [PMID:26187814] Sun P, et al. OsGRF4 controls grain shape, panicle length and seed shattering in rice. J Integr Plant Biol, 2016. 58(10): p. 836-847 [PMID:26936408] Li S, et al. The OsmiR396c-OsGRF4-OsGIF1 regulatory module determines grain size and yield in rice. Plant Biotechnol. J., 2016. 14(11): p. 2134-2146 [PMID:27107174] Che R, et al. Control of grain size and rice yield by GL2-mediated brassinosteroid responses. Nat Plants, 2015. 2: p. 15195 [PMID:27250747] Duan P, et al. Regulation of OsGRF4 by OsmiR396 controls grain size and yield in rice. Nat Plants, 2015. 2: p. 15203 [PMID:27250749]