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

Cucsa.017410.1

Common Name

Csa_2G432230, LOC101222518

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

GRF

Protein Properties

Length: 338aa MW: 37099.1 Da PI: 8.016

Description

GRF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.017410.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRC	78.5	6.6e-25	92	136	1	45
WRC 1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 d+epgrCrRtDGKkWRCs+++++++k+CErH+hrgr+rsrk++e+ Cucsa.017410.1 92 DPEPGRCRRTDGKKWRCSKDAYPDSKYCERHMHRGRNRSRKPVES 136 79****************************************986 PP
2	QLQ	49.9	9.8e-18	30	66	1	37
QLQ 1 saFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 s+FT Q+q+L+ Q+l++K ++a+qPvPpeL++ iqk Cucsa.017410.1 30 SPFTVLQWQELELQALIFKFMMAGQPVPPELVLLIQK 66 89*********************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00951	8.4E-11	30	66	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51666	21.927	31	66	IPR014978	Glutamine-Leucine-Glutamine, QLQ
Pfam	PF08880	3.5E-13	31	65	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51667	25.762	92	136	IPR014977	WRC domain
Pfam	PF08879	3.9E-21	93	135	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: 338 aa Download sequence Send to blast
MNNSGGGGED GSRTVVLGGT ASGMMGMNRS PFTVLQWQEL ELQALIFKFM MAGQPVPPEL 60 VLLIQKSFES ISHRFFHHPT MAYCSFYGKK VDPEPGRCRR TDGKKWRCSK DAYPDSKYCE 120 RHMHRGRNRS RKPVESQTMT QSSSTVTSLT ATGSSSTGTG SFHGLPLNAL SNSQTTTTGT 180 SQPHYPLDSI PYGIPSKDYR YLQGLRPEAG VHSFFSEASG SSRAVQMDAP IDNTWPMMSS 240 RSPSFPASKS TENSIFQSGY AQHSFFGGEY ASGETLKQEG QSLQPLFDEW PRTRESWTGL 300 DDERSNQTSF STTQLSISIP MASSDLSTTS SKSPHDN*

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	LN681915	0.0	LN681915.1 Cucumis melo genomic scaffold, anchoredscaffold00070.
GenBank	LN713265	0.0	LN713265.1 Cucumis melo genomic chromosome, chr_11.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_008462790.1	0.0	PREDICTED: growth-regulating factor 4-like
Swissprot	Q6ZIK5	4e-82	GRF4_ORYSJ; Growth-regulating factor 4
TrEMBL	A0A1S3CHP3	0.0	A0A1S3CHP3_CUCME; growth-regulating factor 4-like
STRING	XP_008462790.1	0.0	(Cucumis melo)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4781	29	51

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G13960.1	2e-43	growth-regulating factor 5

Link Out ? help Back to Top
Phytozome	Cucsa.017410.1
Entrez Gene	101222518

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] Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402] 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]