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

Lus10011558

Organism

Linum usitatissimum

Taxonomic ID

4006

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum

Family

GRF

Protein Properties

Length: 503aa MW: 54756.9 Da PI: 8.7501

Description

GRF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lus10011558	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRC	76.2	3.3e-24	175	219	1	45
WRC 1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 d+epgrCrRtDGKkWRCsr++ +++k+CErH+++gr+rsrk++e Lus10011558 175 DPEPGRCRRTDGKKWRCSRDAFADQKYCERHISKGRHRSRKPVEG 219 79****************************************985 PP
2	QLQ	58.1	2.7e-20	100	136	1	37
QLQ 1 saFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 ++FT++Q+++L++Q+l+yKy+ an+ vP++Ll +i+k Lus10011558 100 GPFTPSQWMELEHQALIYKYITANVAVPSNLLNPIKK 136 59*********************************86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00951	1.7E-11	100	136	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51666	22.983	101	136	IPR014978	Glutamine-Leucine-Glutamine, QLQ
Pfam	PF08880	1.1E-14	101	134	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51667	25.072	175	219	IPR014977	WRC domain
Pfam	PF08879	1.9E-20	176	218	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: 503 aa Download sequence Send to blast
MDFGVLGLDV GHPPLPPPQL EIASSAAAQD VVWMKPSKIQ RTSDDEQQQD VDFSPPNRTI 60 LRSNSTPSTH FSSGNQSYYP PPAPPPPGSS LNVTMHGVRG PFTPSQWMEL EHQALIYKYI 120 TANVAVPSNL LNPIKKSIYP FALSSNNTIS SAASFIPSHL GWGAFHLGYP GSANDPEPGR 180 CRRTDGKKWR CSRDAFADQK YCERHISKGR HRSRKPVEGT KVVSTNSNSN AAAAAGANVR 240 AASNCISITQ QQLKYMQQLT AHRNSSPDAF PNRFTLTDVN ANTNGRFQVP RAPKQNVAIK 300 ESPYSEFGHV SFDSSLNPSQ HKNTSGSCSY NSFLNFNGQD HTQDQHSLHQ FMDNDWPKDH 360 QSSRNVISWP EDQLKSDWTQ LSMSIPMTSS PPHEKLALSP LRLSRELDTK PTASWMPIAW 420 GSASMGGGPL GEALSGNVNK SMVTEELGFS PTGVLQKATF GSLSNNSSSG SSPRGGDESK 480 RNHLCEDLIG SRIASSIAVP YL*

Sequence ? help Back to Top

Protein Sequence Length: 503 aa Download sequence Send to blast

MDFGVLGLDV GHPPLPPPQL EIASSAAAQD VVWMKPSKIQ RTSDDEQQQD VDFSPPNRTI  60
LRSNSTPSTH FSSGNQSYYP PPAPPPPGSS LNVTMHGVRG PFTPSQWMEL EHQALIYKYI  120
TANVAVPSNL LNPIKKSIYP FALSSNNTIS SAASFIPSHL GWGAFHLGYP GSANDPEPGR  180
CRRTDGKKWR CSRDAFADQK YCERHISKGR HRSRKPVEGT KVVSTNSNSN AAAAAGANVR  240
AASNCISITQ QQLKYMQQLT AHRNSSPDAF PNRFTLTDVN ANTNGRFQVP RAPKQNVAIK  300
ESPYSEFGHV SFDSSLNPSQ HKNTSGSCSY NSFLNFNGQD HTQDQHSLHQ FMDNDWPKDH  360
QSSRNVISWP EDQLKSDWTQ LSMSIPMTSS PPHEKLALSP LRLSRELDTK PTASWMPIAW  420
GSASMGGGPL GEALSGNVNK SMVTEELGFS PTGVLQKATF GSLSNNSSSG SSPRGGDESK  480
RNHLCEDLIG SRIASSIAVP YL*

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lus10011558

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	LN681875	2e-36	LN681875.1 Cucumis melo genomic scaffold, anchoredscaffold00007.
GenBank	LN713262	2e-36	LN713262.1 Cucumis melo genomic chromosome, chr_8.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002320668.1	1e-121	growth-regulating factor 1
Swissprot	O81001	2e-82	GRF1_ARATH; Growth-regulating factor 1
TrEMBL	B9IBM4	1e-120	B9IBM4_POPTR; Uncharacterized protein
STRING	Lus10011558	0.0	(Linum usitatissimum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2085	34	81

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G22840.1	4e-81	growth-regulating factor 1

Link Out ? help Back to Top
Phytozome	Lus10011558

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]