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

GSBRNA2T00004391001

Common Name

GSBRNA2T00004391001

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: 340aa MW: 37901 Da PI: 9.5068

Description

BBR-BPC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00004391001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GAGA_bind	388.5	1e-118	1	339	1	301
GAGA_bind 1 mdddgsre..rnkg.yye...pa.aslkenlglqlmssiaerdakirernlalsekkaavaerdmaflqrdkalaernkalverdnklla 83 mdd g+r+ r+k+ + + ++ +s+ +q+ms+iaerda+i+ernla+se+k+avaerdmaflqrd+a+aern+a++erd++l a GSBRNA2T00004391001 1 MDDGGHRDngRHKTpQGQwmmQHqPSM-----KQVMSIIAERDAAIQERNLAISERKSAVAERDMAFLQRDTAIAERNNAIMERDSALSA 85 999999887777762211222222444.....5******************************************************* PP GAGA_bind 84 lllvensla.........salpvgvqvlsgtksidslqqlse...pqledsavelreeeklealpieeaaeeakekkkkkk.rqrakkpk 160 l+++ens+a a+p+g+q+ +g+k+i++ q++++ ql+d+a++ e+++++ lp++ +e+a +++k+k+ ++r k+pk GSBRNA2T00004391001 86 LQYRENSMAtpsavsnmaAACPPGCQMPRGVKHIHHPQMHHQhhmLQLSDHAYD--ESREMDGLPTSPPPETALDSAKPKRgGKRVKDPK 173 ***999*99999***************655568899999999..44445566666677776666655542799* PP GAGA_bind 161 ekkakkkkkksekskkkvkkesader.......................skaekksidl.vlngvslDestlPvPvCsCtGalrqCYkWG 226 +++++ ++k+++k+ +kvkke++d+ sk+++ks+++ +ln+v +De+t+P+PvCsCtG lrqCYkWG GSBRNA2T00004391001 174 ATTKTTANKRGPKNPRKVKKENEDDLtkimfvktldygeeetsklvltgSKSDWKSQEMvGLNQVVYDETTMPPPVCSCTGDLRQCYKWG 263 ****************99883358***************************88************************* PP GAGA_bind 227 nGGWqSaCCtttiSvyPLPvstkrrgaRiagrKmSqgafkklLekLaaeG.ydlsnpvDLkdhWAkHGtnkfvtir 301 nGGWqS+CCtttiS+yPLP+ +++r+aR++grKmS++af+klL++LaaeG +dlsnpvDLkdhWAkHGtn+++ti+ GSBRNA2T00004391001 264 NGGWQSSCCTTTISMYPLPALPNKRHARVGGRKMSGSAFNKLLSRLAAEGhHDLSNPVDLKDHWAKHGTNRYITIK 339 **********************************************88*********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF06217	1.6E-102	1	339	IPR010409	GAGA-binding transcriptional activator
SMART	SM01226	4.8E-162	1	339	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:0005730	Cellular Component	nucleolus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0042803	Molecular Function	protein homodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 340 aa Download sequence Send to blast
MDDGGHRDNG RHKTPQGQWM MQHQPSMKQV MSIIAERDAA IQERNLAISE RKSAVAERDM 60 AFLQRDTAIA ERNNAIMERD SALSALQYRE NSMATPSAVS NMAAACPPGC QMPRGVKHIH 120 HPQMHHQHHM LQLSDHAYDE SREMDGLPTS PPPETALDSA KPKRGGKRVK DPKATTKTTA 180 NKRGPKNPRK VKKENEDDLT KIMFVKTLDY GEEETSKLVL TGSKSDWKSQ EMVGLNQVVY 240 DETTMPPPVC SCTGDLRQCY KWGNGGWQSS CCTTTISMYP LPALPNKRHA RVGGRKMSGS 300 AFNKLLSRLA AEGHHDLSNP VDLKDHWAKH GTNRYITIK*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.17436	0.0	leaf\| 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 vasculature, 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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00540	DAP	Transfer from AT5G42520	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00004391001

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	EF529514	0.0	EF529514.1 Brassica rapa subsp. pekinensis GAGA-binding transcriptional activator (BBR/BPC6) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013587904.1	0.0	PREDICTED: protein BASIC PENTACYSTEINE6 isoform X2
Refseq	XP_013698598.1	0.0	protein BASIC PENTACYSTEINE6-like isoform X2
Swissprot	Q8L999	0.0	BPC6_ARATH; Protein BASIC PENTACYSTEINE6
TrEMBL	A0A078JYI4	0.0	A0A078JYI4_BRANA; BnaC06g42740D protein
STRING	Bo6g076850.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6169	26	47

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G42520.1	0.0	basic pentacysteine 6

Publications ? help Back to Top
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]