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

GSBRNA2T00121547001

Common Name

GSBRNA2T00121547001, LOC106439138

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

bHLH

Protein Properties

Length: 347aa MW: 37558.4 Da PI: 6.7207

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00121547001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	50.9	2.7e-16	181	227	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 hn E+rRR+riN+++ L++l+P++ K +Ka++L +A+eY+k+Lq GSBRNA2T00121547001 181 VHNLSEKRRRSRINEKMKALQSLIPNS-----NKTDKASMLDEAIEYLKQLQ 227 6***********************7.....5****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	2.58E-18	173	231	No hit	No description
SuperFamily	SSF47459	5.1E-20	175	237	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	18.063	177	226	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.6E-19	178	237	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	9.4E-14	181	227	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.0E-18	183	232	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 347 aa Download sequence Send to blast
MGDNKKLISS SSSSTNTSIY DTRGNNSNNH HHHHPPSSSD EISQFLRHIF DRSSPLPSYY 60 SPAMTTTTST AAIGVQGDPH ADNPRSFVST TPASKRAVDF SDVLIGSAAA AAGCYGFPGG 120 GNNIAQGSSS GTRVSSSSIG ASGNETDEYD CESEEGVEAV VDDELPSKSR NSSKRCRAAE 180 VHNLSEKRRR SRINEKMKAL QSLIPNSNKT DKASMLDEAI EYLKQLQLQV QMLTMRNGLN 240 LHPLCLPGTS LHPLQLSQIR PPETSNDPLL NHSNQYASTS NAPDMINMPS AYTMEPSIRS 300 HFGPFPHFTP PVEMSREGGL THQRLNTSGE HAAFDGQHPE IKDRLT*

Sequence ? help Back to Top

Protein Sequence Length: 347 aa Download sequence Send to blast

MGDNKKLISS SSSSTNTSIY DTRGNNSNNH HHHHPPSSSD EISQFLRHIF DRSSPLPSYY  60
SPAMTTTTST AAIGVQGDPH ADNPRSFVST TPASKRAVDF SDVLIGSAAA AAGCYGFPGG  120
GNNIAQGSSS GTRVSSSSIG ASGNETDEYD CESEEGVEAV VDDELPSKSR NSSKRCRAAE  180
VHNLSEKRRR SRINEKMKAL QSLIPNSNKT DKASMLDEAI EYLKQLQLQV QMLTMRNGLN  240
LHPLCLPGTS LHPLQLSQIR PPETSNDPLL NHSNQYASTS NAPDMINMPS AYTMEPSIRS  300
HFGPFPHFTP PVEMSREGGL THQRLNTSGE HAAFDGQHPE IKDRLT*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: During flower initiation, expressed in the peripheral zone of the shoot apical meristem. Confined to the anlagen of successive flower buds yet to arise. Later expressed in abaxial and adaxial sepal primordia, but not in sepals. When sepals initiate, localized in the region interior to them. Within the gynoecium, detected in the initiating and developing medial regions, and then in the developing septum and stigma. SPT expression also occurs in sub-regions of developing ovules, and in the wall and dehiscence zone of the maturing fruit. As the petals develop, becomes restricted to the adaxial epidermis. In stamen expression increase in the vicinity of the archesporial cells and in cells undergoing divisions to produce sporogenous and secondary parietal cells of the anther locules. Expressed in the tapetum and microspore mother cells until the initiation of meiosis. Also detected in stomium and filaments. {ECO:0000269\|PubMed:11245574}.
Uniprot	TISSUE SPECIFICITY: Expressed in lateral root caps, young leaves, stipules, maturing pith cells of the stem, differentiating vascular cells, shoot apical meristems and flowers. {ECO:0000269\|PubMed:11245574}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that plays a role in floral organogenesis. Promotes the growth of carpel margins and of pollen tract tissues derived from them. {ECO:0000269\|PubMed:10225997, ECO:0000269\|Ref.8}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00121547001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by the A class gene AP2 in the first whorl and by ARF3/ETT in gynoecium. {ECO:0000269\|PubMed:11245574}.

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	AC232512	0.0	AC232512.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB065B14, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_022574130.1	0.0	transcription factor SPATULA isoform X2
Swissprot	Q9FUA4	1e-148	SPT_ARATH; Transcription factor SPATULA
TrEMBL	A0A3P5ZNN3	0.0	A0A3P5ZNN3_BRACM; Uncharacterized protein (Fragment)
STRING	Bo1g004970.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4199	27	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G36930.1	1e-131	bHLH family protein

Link Out ? help Back to Top
Entrez Gene	106439138

Publications ? help Back to Top
Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature. Differentiation, 2010. 80(1): p. 1-8 [PMID:20219281] Pabón-Mora N,Wong GK,Ambrose BA Evolution of fruit development genes in flowering plants. Front Plant Sci, 2014. 5: p. 300 [PMID:25018763] 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] Moubayidin L,Ostergaard L Dynamic control of auxin distribution imposes a bilateral-to-radial symmetry switch during gynoecium development. Curr. Biol., 2014. 24(22): p. 2743-8 [PMID:25455035] Pfannebecker KC,Lange M,Rupp O,Becker A Seed Plant-Specific Gene Lineages Involved in Carpel Development. Mol. Biol. Evol., 2017. 34(4): p. 925-942 [PMID:28087776] Zumajo-Cardona C,Ambrose BA,Pabón-Mora N Evolution of the SPATULA/ALCATRAZ gene lineage and expression analyses in the basal eudicot, Bocconia frutescens L. (Papaveraceae). Evodevo, 2017. 8: p. 5 [PMID:28331573] Reyes-Olalde JI, et al. The bHLH transcription factor SPATULA enables cytokinin signaling, and both activate auxin biosynthesis and transport genes at the medial domain of the gynoecium. PLoS Genet., 2017. 13(4): p. e1006726 [PMID:28388635] Wu M, et al. SPATULA regulates floral transition and photomorphogenesis in a PHYTOCHROME B-dependent manner in Arabidopsis. Biochem. Biophys. Res. Commun., 2018. 503(4): p. 2380-2385 [PMID:29966653]