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

Glyma.11G008500.1.p

Common Name

GLYMA_11G008500, LOC100817313

Organism

Glycine max

Taxonomic ID

3847

Taxonomic Lineage

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

Family

GRF

Protein Properties

Length: 309aa MW: 34583.2 Da PI: 8.0352

Description

GRF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Glyma.11G008500.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRC	78.6	6.1e-25	68	112	1	45
WRC 1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 d+epgrCrRtDGKkWRCs+++++++k+CErH+hrgr+rsrk++e+ Glyma.11G008500.1.p 68 DPEPGRCRRTDGKKWRCSKEAYPDSKYCERHMHRGRNRSRKPVES 112 79****************************************986 PP
2	QLQ	61.8	1.9e-21	5	40	2	37
QLQ 2 aFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 +FT +Q+q+L++Q+l+yKy++a++PvPp+L+ +iq+ Glyma.11G008500.1.p 5 PFTISQWQELEHQALIYKYMVAGLPVPPDLVIPIQN 40 8*********************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00951	1.0E-10	4	40	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51666	24.351	5	40	IPR014978	Glutamine-Leucine-Glutamine, QLQ
Pfam	PF08880	3.0E-16	5	39	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51667	25.762	68	112	IPR014977	WRC domain
Pfam	PF08879	2.7E-21	69	111	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: 309 aa Download sequence Send to blast
MSKWPFTISQ WQELEHQALI YKYMVAGLPV PPDLVIPIQN SFHSISQTFL HHPSTTMSYC 60 SFYGKKVDPE PGRCRRTDGK KWRCSKEAYP DSKYCERHMH RGRNRSRKPV ESQTMTQSSS 120 NVSSLTVTAG SSTSATGNFQ NLSTTNAYGN PQGTASGTDQ THYHMDSIPY GIPSKEYRYF 180 QGSKSEEHSF LSKTLGSNRV LHMEPQMDNT LMPTGGVASF STLRSNNNSM LQGDYLQPSF 240 LSSEYASAET VKQEGQSLRP FFDEWPKSRD SWSGLEDERS NHTQLSISIP MSSSNFSATS 300 SHSPHGEI*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Gma.61204	0.0	hypocotyl

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Glyma.11G008500.1.p

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	BT097957	0.0	BT097957.1 Soybean clone JCVI-FLGm-16O8 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003537666.1	0.0	growth-regulating factor 4
Refseq	XP_028188047.1	0.0	growth-regulating factor 4-like
Swissprot	Q6ZIK5	3e-80	GRF4_ORYSJ; Growth-regulating factor 4
TrEMBL	A0A445HV78	0.0	A0A445HV78_GLYSO; Growth-regulating factor 4
TrEMBL	I1LFW5	0.0	I1LFW5_SOYBN; Uncharacterized protein
STRING	GLYMA11G01060.1	0.0	(Glycine max)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4781	29	51
Representative plant	OGRP460	16	84

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G13960.1	2e-45	growth-regulating factor 5

Link Out ? help Back to Top
Phytozome	Glyma.11G008500.1.p
Entrez Gene	100817313

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]