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

GSBRNA2T00004739001

Common Name

GSBRNA2T00004739001

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

BBR-BPC

Protein Properties

Length: 274aa MW: 30476.5 Da PI: 10.0127

Description

BBR-BPC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00004739001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GAGA_bind	347.9	2.3e-106	1	273	1	301
GAGA_bind 1 mdddgsrernkgyyepa.aslkenlglqlmssiaerdaki....rernlalsekkaavaerd....maflqrdkalaernkalverdnkl 81 mdddg+ rn+gyyepa a++k nlglqlmss +r++k+ r+ nl ++++++++++ + m++ +++++ +++k+ GSBRNA2T00004739001 1 MDDDGF--RNWGYYEPAaATFKGNLGLQLMSSA-DRNTKPflpgRDPNL-MIGQNGSYHHAEppihMSY----NWINQ-------QKDKF 75 9999..9***999*********9.9**********.********5555555....*.......899 PP GAGA_bind 82 lalllvenslasalpvgvqvlsgtksidslqqlsepqledsavelreeeklealpieeaaeeakekkkkkkrqrakkpkekkakkkkkks 171 +++l+v++s p++ +vl++t+s+ s+++++++q+ed++v+ +eee +i++ +++ k+++ + ++++k kk +k+k+ GSBRNA2T00004739001 76 FNMLPVTTS-----PNYGNVLPETSSAPSMHHHHHHQTEDNPVKCEEEE-----EIVQPNKKRKTNS-----KASATAKGKKPRKPKE-- 148 ***9997.....9************************965555.....4444322222222.....3445666677777777.. PP GAGA_bind 172 ekskkkvkkesaderskaekksidlvlngvslDestlPvPvCsCtGalrqCYkWGnGGWqSaCCtttiSvyPLPvstkrrgaRiagrKmS 261 ++++k++ +r+k kks+dlv+ngv++D+s+lPvPvC+CtGa++qCY+WG+GGWqSaCCtt+iS++PLP+stkrrgaRi+grKmS GSBRNA2T00004739001 149 ---ENDSKTNV--SRVKPAKKSVDLVINGVNMDISGLPVPVCTCTGAPQQCYRWGCGGWQSACCTTNISMHPLPMSTKRRGARISGRKMS 233 ...23444555..689********************************************************************** PP GAGA_bind 262 qgafkklLekLaaeGydlsnpvDLkdhWAkHGtnkfvtir 301 qgafkk+LekL+++G++++ p+DLk+hWA+HGtnkfvtir GSBRNA2T00004739001 234 QGAFKKVLEKLSSDGFNFGSPIDLKSHWARHGTNKFVTIR 273 *************************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01226	2.2E-166	1	273	IPR010409	GAGA-binding transcriptional activator
Pfam	PF06217	8.6E-97	1	273	IPR010409	GAGA-binding transcriptional activator

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009723	Biological Process	response to ethylene
GO:0050793	Biological Process	regulation of developmental process
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 274 aa Download sequence Send to blast
MDDDGFRNWG YYEPAAATFK GNLGLQLMSS ADRNTKPFLP GRDPNLMIGQ NGSYHHAEPP 60 IHMSYNWINQ QKDKFFNMLP VTTSPNYGNV LPETSSAPSM HHHHHHQTED NPVKCEEEEE 120 IVQPNKKRKT NSKASATAKG KKPRKPKEEN DSKTNVSRVK PAKKSVDLVI NGVNMDISGL 180 PVPVCTCTGA PQQCYRWGCG GWQSACCTTN ISMHPLPMST KRRGARISGR KMSQGAFKKV 240 LEKLSSDGFN FGSPIDLKSH WARHGTNKFV TIR*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.27893	0.0	seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in seedlings, leaves and pistils. Detected in the base of flowers and tips of carpels, in sepal and petal vasculature, in pollen grains, in young rosette, in the lateral and tip of primary roots, and in ovule at the exception of the outer integument. {ECO:0000269\|PubMed:14731261, ECO:0000269\|PubMed:21435046}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional regulator that specifically binds to GA-rich elements (GAGA-repeats) present in regulatory sequences of genes involved in developmental processes. {ECO:0000269\|PubMed:14731261}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00004739001

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_013677778.1	0.0	protein BASIC PENTACYSTEINE2 isoform X2
Refseq	XP_013677779.1	0.0	protein BASIC PENTACYSTEINE2 isoform X1
Refseq	XP_013677780.1	0.0	protein BASIC PENTACYSTEINE2 isoform X1
Refseq	XP_013727296.1	0.0	protein BASIC PENTACYSTEINE2 isoform X2
Refseq	XP_013727297.1	0.0	protein BASIC PENTACYSTEINE2 isoform X1
Refseq	XP_013727298.1	0.0	protein BASIC PENTACYSTEINE2 isoform X1
Refseq	XP_013727312.1	0.0	protein BASIC PENTACYSTEINE2 isoform X2
Refseq	XP_013727313.1	0.0	protein BASIC PENTACYSTEINE2 isoform X1
Refseq	XP_013727314.1	0.0	protein BASIC PENTACYSTEINE2 isoform X1
Swissprot	Q9LDE2	1e-170	BPC2_ARATH; Protein BASIC PENTACYSTEINE2
TrEMBL	A0A078IRI7	0.0	A0A078IRI7_BRANA; BnaA08g31470D protein
STRING	Bra016686.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2893	27	69

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G14685.3	1e-169	basic pentacysteine 2

Publications ? help Back to Top
Brand LH,Kirchler T,Hummel S,Chaban C,Wanke D DPI-ELISA: a fast and versatile method to specify the binding of plant transcription factors to DNA in vitro. Plant Methods, 2010. 6: p. 25 [PMID:21108821] Simonini S,Kater MM Class I BASIC PENTACYSTEINE factors regulate HOMEOBOX genes involved in meristem size maintenance. J. Exp. Bot., 2014. 65(6): p. 1455-65 [PMID:24482368] 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]