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

GSBRNA2T00015890001

Common Name

GSBRNA2T00015890001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

GRF

Protein Properties

Length: 498aa MW: 54047.3 Da PI: 9.8976

Description

GRF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00015890001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRC	72	6.8e-23	197	235	1	39
WRC 1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrs 39 d+epgrCrRtDGKkWRCsr++++++k+CErH++rgr+r+ GSBRNA2T00015890001 197 DPEPGRCRRTDGKKWRCSRDAVPDQKYCERHINRGRHRY 235 79************************************7 PP
2	WRC	79.3	3.6e-25	320	363	1	44
WRC 1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkske 44 d+epgrCrRtDGKkWRCsr++++++k+CErH++rgr+rsrk++e GSBRNA2T00015890001 320 DPEPGRCRRTDGKKWRCSRDAVPDQKYCERHINRGRHRSRKPVE 363 79***************************************998 PP
3	QLQ	51.6	2.9e-18	133	169	1	37
QLQ 1 saFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 ++F+ +Q+++L++Q+l+yKy+ an+PvP+ Ll+ ++k GSBRNA2T00015890001 133 GPFSLTQWAELEQQALIYKYITANVPVPSSLLLSLKK 169 59******************************99875 PP
4	QLQ	51.6	2.9e-18	256	292	1	37
QLQ 1 saFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 ++F+ +Q+++L++Q+l+yKy+ an+PvP+ Ll+ ++k GSBRNA2T00015890001 256 GPFSLTQWAELEQQALIYKYITANVPVPSSLLLSLKK 292 59******************************99875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00951	1.3E-10	133	169	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51666	20.723	134	169	IPR014978	Glutamine-Leucine-Glutamine, QLQ
Pfam	PF08880	2.0E-12	134	166	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51667	22.287	197	241	IPR014977	WRC domain
Pfam	PF08879	4.1E-19	198	235	IPR014977	WRC domain
SMART	SM00951	1.3E-10	256	292	IPR014978	Glutamine-Leucine-Glutamine, QLQ
Pfam	PF08880	2.0E-12	257	289	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51666	20.723	257	292	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51667	25.954	320	364	IPR014977	WRC domain
Pfam	PF08879	3.1E-21	321	363	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: 498 aa Download sequence Send to blast
MDLGVRFEGS VSGHENGSPG QTELGSGFGN KQERSGFDGE DFWRSSKLSR TLIDGFSSSS 60 AAAKTLSFHQ GIPLLRSTSV DPRRQEQMLS FSPASDKSDV SPYLQYCRNS GYGLGGMMNT 120 NSMHGSLLTG AKGPFSLTQW AELEQQALIY KYITANVPVP SSLLLSLKKS FFPYGSLPPN 180 SFGWGSFHLG FSGGNMDPEP GRCRRTDGKK WRCSRDAVPD QKYCERHINR GRHRYGLGGM 240 MNTNSMHGSL LTGAKGPFSL TQWAELEQQA LIYKYITANV PVPSSLLLSL KKSFFPYGSL 300 PPNSFGWGSF HLGFSGGNMD PEPGRCRRTD GKKWRCSRDA VPDQKYCERH INRGRHRSRK 360 PVEGLNGHNT NATAAASAAS KAETATTVVA MCGSDNNNSL AAVGTHNHAI PSMANSDRVQ 420 NVQGASVFPA TMNLQSKESH QKQSSSPFEF GLISSDSLLN PSHKQPSYAN SSKGFGSYLD 480 FSNQAKNSSM SIPGQKS*

Sequence ? help Back to Top

Protein Sequence Length: 498 aa Download sequence Send to blast

MDLGVRFEGS VSGHENGSPG QTELGSGFGN KQERSGFDGE DFWRSSKLSR TLIDGFSSSS  60
AAAKTLSFHQ GIPLLRSTSV DPRRQEQMLS FSPASDKSDV SPYLQYCRNS GYGLGGMMNT  120
NSMHGSLLTG AKGPFSLTQW AELEQQALIY KYITANVPVP SSLLLSLKKS FFPYGSLPPN  180
SFGWGSFHLG FSGGNMDPEP GRCRRTDGKK WRCSRDAVPD QKYCERHINR GRHRYGLGGM  240
MNTNSMHGSL LTGAKGPFSL TQWAELEQQA LIYKYITANV PVPSSLLLSL KKSFFPYGSL  300
PPNSFGWGSF HLGFSGGNMD PEPGRCRRTD GKKWRCSRDA VPDQKYCERH INRGRHRSRK  360
PVEGLNGHNT NATAAASAAS KAETATTVVA MCGSDNNNSL AAVGTHNHAI PSMANSDRVQ  420
NVQGASVFPA TMNLQSKESH QKQSSSPFEF GLISSDSLLN PSHKQPSYAN SSKGFGSYLD  480
FSNQAKNSSM SIPGQKS*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during the early stages of leaf development and expression decreases with the maturation of the leaf. {ECO:0000269\|PubMed:20023165}.
Uniprot	TISSUE SPECIFICITY: Strongly expressed in actively growing and developing tissues, such as roots, upper stems, and shoot tips containing the shoot apical meristem (SAM) and flower buds. Also expressed in mature flowers, but weakly expressed in mature stems and leaves. {ECO:0000269\|PubMed:12974814}.

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	GSBRNA2T00015890001

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	JN698986	0.0	JN698986.1 Brassica rapa subsp. pekinensis growth-regulating factor 1 mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013685216.1	1e-165	growth-regulating factor 1
Swissprot	O81001	1e-138	GRF1_ARATH; Growth-regulating factor 1
TrEMBL	A0A078G4U1	0.0	A0A078G4U1_BRANA; BnaC03g27220D protein
STRING	Bo3g042310.1	1e-163	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1454	28	86

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G22840.1	1e-138	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] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] 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]