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

Cc07_g07350

Common Name

GSCOC_T00040084001

Organism

Coffea canephora

Taxonomic ID

49390

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea

Family

GRF

Protein Properties

Length: 590aa MW: 62968.1 Da PI: 8.7448

Description

GRF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cc07_g07350	genome	CGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRC	78.1	8.7e-25	215	259	1	45
WRC 1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 d+epgrCrRtDGKkWRCsr++++++k+CErH++rgr+rsrk++e Cc07_g07350 215 DPEPGRCRRTDGKKWRCSRDAVPDQKYCERHINRGRHRSRKPVEG 259 79****************************************985 PP
2	QLQ	62.4	1.2e-21	145	181	1	37
QLQ 1 saFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 ++FT++Q+++L++Q+l+yKy++an+PvP++Ll +++k Cc07_g07350 145 GPFTPSQWMELEHQALIYKYIIANVPVPSHLLIPLRK 181 59*******************************9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00951	6.3E-13	145	181	IPR014978	Glutamine-Leucine-Glutamine, QLQ
Pfam	PF08880	1.6E-15	146	179	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51666	23.78	146	181	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51667	25.954	215	259	IPR014977	WRC domain
Pfam	PF08879	3.9E-21	216	258	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: 590 aa Download sequence Send to blast
MDFGVITTEG VGGDASCNGA GSEPFGISLE KRGGSGVLKT ERSGSIQESL RVSKSARANE 60 FCIFSQGQSP ALLRSGSGLP GNNGQTMISF SSQSQVPYFS DEDASKTSAF PFFIAPPDPL 120 CPRTSGYATE KSTEGMRGPF AKFRGPFTPS QWMELEHQAL IYKYIIANVP VPSHLLIPLR 180 KSFNPCAFSS LASGSYGSSS LGWGSFHLGF AGSTDPEPGR CRRTDGKKWR CSRDAVPDQK 240 YCERHINRGR HRSRKPVEGQ NGHAVSGSTA SKVAPIASSS SASVMSSSSA SNSLGAVHHS 300 FKNLHTRADN ASTEHLVSRM QDLHGLSAAG DSINLKSKDS PFSIQKQHAI FGGSSQTEFG 360 VVSPDSLLNP SQRCSRMSSK TSDSLLGFND HETPNQHLLR HFIDKCPKDQ SHRASISWPE 420 ELKSDWTQLS MSIPMSTSDF SSSSRSPRQD KPTLSPLRLA REIDPIQMGL SVTKDVVGQN 480 QKQANWLPAS WGNSILGGPL GEVLNSTSSN AGGFKSSSTL NLMTDVWDNS PQMGCSPTGV 540 LQKSTFVSLS NSSSGSSPRT DNKKAPEGAT LCDDILGSTL AHSTSIPSM*

Sequence ? help Back to Top

Protein Sequence Length: 590 aa Download sequence Send to blast

MDFGVITTEG VGGDASCNGA GSEPFGISLE KRGGSGVLKT ERSGSIQESL RVSKSARANE  60
FCIFSQGQSP ALLRSGSGLP GNNGQTMISF SSQSQVPYFS DEDASKTSAF PFFIAPPDPL  120
CPRTSGYATE KSTEGMRGPF AKFRGPFTPS QWMELEHQAL IYKYIIANVP VPSHLLIPLR  180
KSFNPCAFSS LASGSYGSSS LGWGSFHLGF AGSTDPEPGR CRRTDGKKWR CSRDAVPDQK  240
YCERHINRGR HRSRKPVEGQ NGHAVSGSTA SKVAPIASSS SASVMSSSSA SNSLGAVHHS  300
FKNLHTRADN ASTEHLVSRM QDLHGLSAAG DSINLKSKDS PFSIQKQHAI FGGSSQTEFG  360
VVSPDSLLNP SQRCSRMSSK TSDSLLGFND HETPNQHLLR HFIDKCPKDQ SHRASISWPE  420
ELKSDWTQLS MSIPMSTSDF SSSSRSPRQD KPTLSPLRLA REIDPIQMGL SVTKDVVGQN  480
QKQANWLPAS WGNSILGGPL GEVLNSTSSN AGGFKSSSTL NLMTDVWDNS PQMGCSPTGV  540
LQKSTFVSLS NSSSGSSPRT DNKKAPEGAT LCDDILGSTL AHSTSIPSM*

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. microRNA396-GRF1/GRF3 regulatory module acts as a developmental regulator in the reprogramming of root cells during cyst nematode infection, leading to the formation of the syncytium. {ECO:0000269\|PubMed:12974814, ECO:0000269\|PubMed:15326298, ECO:0000269\|PubMed:22419826, ECO:0000269\|PubMed:22751317}.

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). Up-regulated in response to cyst nematode infection. {ECO:0000269\|PubMed:15200956, ECO:0000269\|PubMed:19453503, ECO:0000269\|PubMed:20023165, ECO:0000269\|PubMed:22419826}.

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_027076603.1	0.0	growth-regulating factor 1-like isoform X1
Swissprot	O81001	1e-105	GRF1_ARATH; Growth-regulating factor 1
TrEMBL	A0A068U264	0.0	A0A068U264_COFCA; Uncharacterized protein
STRING	XP_009589483.1	0.0	(Nicotiana tomentosiformis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA1688	23	57

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G22840.1	2e-85	growth-regulating factor 1

Publications ? help Back to Top
Casadevall R,Rodriguez RE,Debernardi JM,Palatnik JF,Casati P Repression of growth regulating factors by the microRNA396 inhibits cell proliferation by UV-B radiation in Arabidopsis leaves. Plant Cell, 2013. 25(9): p. 3570-83 [PMID:24076976] Liu J,Rice JH,Chen N,Baum TJ,Hewezi T Synchronization of developmental processes and defense signaling by growth regulating transcription factors. PLoS ONE, 2014. 9(5): p. e98477 [PMID:24875638] 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]