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

GSBRNA2T00086727001

Common Name

GSBRNA2T00086727001

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: 218aa MW: 25183.9 Da PI: 4.9135

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00086727001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	32.1	2e-10	38	81	7	55
HHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 e+ErrRR+++ ++ Lr+++P + ++Ka+i+e + YI++Lq GSBRNA2T00086727001 38 EAERRRREKLHGRLMALRSHVPIV-----TNMTKASIVEDSITYIRELQ 81 79*******************8.....69***************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	2.56E-10	29	84	No hit	No description
SuperFamily	SSF47459	3.14E-14	30	99	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	14.373	31	80	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	8.2E-12	37	86	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	4.7E-8	38	81	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	2.5E-12	38	96	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: 218 aa Download sequence Send to blast
MGGGNRFQEP VRISRRRQVR KDEEENEVNE SFKSPNLEAE RRRREKLHGR LMALRSHVPI 60 VTNMTKASIV EDSITYIREL QEEVVNLTEK LHEMEEAPLE LDEQQQTDQI IKPEHETIDL 120 KEEMKKLGIE ENIQLCKIGE RKLWLKITTE KKPGIFTKFM EVMRFMGLEI IDITLTTSCG 180 ATLICSSVQI LQGLCDGDSV DLEQTKEFLL EVMRSNP*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	39	44	ERRRRE
2	40	45	RRRREK

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: First observed in floral meristem and early anther primordia. Later detected in archesporial cells. From stage 4 to early stage 5, weakly expressed in precursors of the middle layer, tapetum and meiocytes. Strongly expressed in the tapetum from late anther stage 5 to early stage 6, and at a lower level in meiocytes. {ECO:0000269\|PubMed:16831835}.
Uniprot	TISSUE SPECIFICITY: Mostly expressed in anthers, and, to a lower extent, in young inflorescences undergoing meiosis and siliques. {ECO:0000269\|PubMed:16831835}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor. Involved in the control of tapetum development. Required for male fertility and pollen differentiation, especially during callose deposition. {ECO:0000269\|PubMed:16831835}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00086727001

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	EF104530	2e-77	EF104530.1 Brassica rapa clone E30_5 genomic sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013730022.1	1e-156	transcription factor DYT1-like
Refseq	XP_022555811.1	1e-156	transcription factor DYT1-like
Swissprot	O81900	1e-109	DYT1_ARATH; Transcription factor DYT1
TrEMBL	A0A078ID23	1e-156	A0A078ID23_BRANA; BnaC03g64200D protein
STRING	Bo3g162600.1	1e-154	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8358	25	38

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G21330.1	1e-112	bHLH family protein

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] Jiang J,Zhang Z,Cao J Pollen wall development: the associated enzymes and metabolic pathways. Plant Biol (Stuttg), 2013. 15(2): p. 249-63 [PMID:23252839] 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] Qian H, et al. Trace concentrations of imazethapyr (IM) affect floral organs development and reproduction in Arabidopsis thaliana: IM-induced inhibition of key genes regulating anther and pollen biosynthesis. Ecotoxicology, 2015. 24(1): p. 163-71 [PMID:25348600] Shumin Z, et al. One novel cis-element is essential for correct DYSFUNCTIONAL TAPETUM 1 (DYT1) expression in Arabidopsis thaliana. Plant Cell Rep., 2015. 34(10): p. 1773-80 [PMID:26134855] Cui J, et al. Feedback Regulation of DYT1 by Interactions with Downstream bHLH Factors Promotes DYT1 Nuclear Localization and Anther Development. Plant Cell, 2016. 28(5): p. 1078-93 [PMID:27113773] Arkadir D, et al. DYT1 dystonia increases risk taking in humans. Elife, 2017. [PMID:27249418] Premi E, et al. Functional Connectivity Networks in Asymptomatic and Symptomatic DYT1 Carriers. Mov. Disord., 2016. 31(11): p. 1739-1743 [PMID:27453152] Beauvais G, et al. Disruption of Protein Processing in the Endoplasmic Reticulum of DYT1 Knock-in Mice Implicates Novel Pathways in Dystonia Pathogenesis. J. Neurosci., 2016. 36(40): p. 10245-10256 [PMID:27707963] Richter F,Gerstenberger J,Bauer A,Liang CC,Richter A Sensorimotor tests unmask a phenotype in the DYT1 knock-in mouse model of dystonia. Behav. Brain Res., 2017. 317: p. 536-541 [PMID:27769743] Zhou S, et al. Function Identification of the Nucleotides in Key cis-Element of DYSFUNCTIONAL TAPETUM1 (DYT1) Promoter. Front Plant Sci, 2017. 8: p. 153 [PMID:28261229] Li DD,Xue JS,Zhu J,Yang ZN Gene Regulatory Network for Tapetum Development in Arabidopsis thaliana. Front Plant Sci, 2017. 8: p. 1559 [PMID:28955355] Ponterio G, et al. Enhanced mu opioid receptor-dependent opioidergic modulation of striatal cholinergic transmission in DYT1 dystonia. Mov. Disord., 2018. 33(2): p. 310-320 [PMID:29150865] György B, et al. Mutant torsinA in the heterozygous DYT1 state compromises HSV propagation in infected neurons and fibroblasts. Sci Rep, 2018. 8(1): p. 2324 [PMID:29396398]