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

678359428

Organism

Utricularia gibba

Taxonomic ID

13748

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Lentibulariaceae; Utricularia

Family

GRF

Protein Properties

Length: 348aa MW: 38086 Da PI: 7.976

Description

GRF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
678359428	genome	UGSP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRC	76.9	2e-24	86	130	1	45
WRC 1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 d+epgrCrRtDGKkWRCs+++ +++k+CErH+hrgr+rsrk++e+ 678359428 86 DPEPGRCRRTDGKKWRCSKDAHPDSKYCERHMHRGRNRSRKPVES 130 79****************************************986 PP
2	QLQ	63.9	4.2e-22	25	59	2	36
QLQ 2 aFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiq 36 +FTa Q+q+L++Q++++KyL+a++PvPp+L+++i+ 678359428 25 PFTAGQWQELEHQAMIFKYLVAGVPVPPDLVMPIR 59 9*********************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00951	1.8E-11	24	60	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51666	22.897	25	60	IPR014978	Glutamine-Leucine-Glutamine, QLQ
Pfam	PF08880	8.2E-17	25	59	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51667	25.831	86	130	IPR014977	WRC domain
Pfam	PF08879	6.4E-21	87	129	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: 348 aa Download sequence Send to blast
MSETASTSLA IGSGRDGGYG GYRPPFTAGQ WQELEHQAMI FKYLVAGVPV PPDLVMPIRH 60 SFDAISARLF HHPSLGYVSY YGKKFDPEPG RCRRTDGKKW RCSKDAHPDS KYCERHMHRG 120 RNRSRKPVES QSTSQPLPTA MTQISSGSAT NTISLQIGGS SSFQNMALYS SGCSDGSSYG 180 GRLSKLQMAN LPYGIDNKEL RYNPGLGSET DDHTFPSETS SGAGTNSWRL MPSQVSSTSL 240 LKPEADSLLQ SSNSTHQNLA HAFDPVDTKQ RQHHCFLGND IGPGKQEQHA VHPFFNEWPS 300 MKESSWSVDG TEKNIFSSTQ LSISIPRGSS DFSSGSAYSQ NGEFPNSS

Sequence ? help Back to Top

Protein Sequence Length: 348 aa Download sequence Send to blast

MSETASTSLA IGSGRDGGYG GYRPPFTAGQ WQELEHQAMI FKYLVAGVPV PPDLVMPIRH  60
SFDAISARLF HHPSLGYVSY YGKKFDPEPG RCRRTDGKKW RCSKDAHPDS KYCERHMHRG  120
RNRSRKPVES QSTSQPLPTA MTQISSGSAT NTISLQIGGS SSFQNMALYS SGCSDGSSYG  180
GRLSKLQMAN LPYGIDNKEL RYNPGLGSET DDHTFPSETS SGAGTNSWRL MPSQVSSTSL  240
LKPEADSLLQ SSNSTHQNLA HAFDPVDTKQ RQHHCFLGND IGPGKQEQHA VHPFFNEWPS  300
MKESSWSVDG TEKNIFSSTQ LSISIPRGSS DFSSGSAYSQ NGEFPNSS

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	678359428

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	AY303170	5e-45	AY303170.1 Solanum bulbocastanum chromosome 8 clone UW3A14, complete sequence.
GenBank	AY303171	5e-45	AY303171.1 Solanum bulbocastanum chromosome 8 clone UW177O13, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020553030.1	1e-167	growth-regulating factor 4-like isoform X1
Refseq	XP_020553031.1	1e-167	growth-regulating factor 4-like isoform X1
Refseq	XP_020553032.1	1e-167	growth-regulating factor 4-like isoform X1
Refseq	XP_020553033.1	1e-167	growth-regulating factor 4-like isoform X1
Refseq	XP_020553034.1	1e-167	growth-regulating factor 4-like isoform X1
Swissprot	Q6ZIK5	7e-81	GRF4_ORYSJ; Growth-regulating factor 4
TrEMBL	A0A1S4AYW5	1e-132	A0A1S4AYW5_TOBAC; growth-regulating factor 4-like isoform X1
STRING	XP_009605688.1	1e-133	(Nicotiana tomentosiformis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA743	23	84

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G13960.1	2e-48	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]