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

GSBRNA2T00070429001

Common Name

GSBRNA2T00070429001, LOC106390344

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: 217aa MW: 23510.8 Da PI: 9.2613

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00070429001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	48.3	1.8e-15	99	146	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 h E+rRR++iN+++ L++l+P++ +k +Ka++L +A+eY+k+Lq GSBRNA2T00070429001 99 FHTLSEKRRRSKINEKMKALQKLIPNS----NKVTDKASMLDEAIEYLKQLQ 146 59999*******************9....677***************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	16.05	95	145	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	6.02E-18	98	154	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	7.2E-13	99	146	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.1E-18	99	154	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	4.31E-15	100	148	No hit	No description
SMART	SM00353	1.4E-14	101	151	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: 217 aa Download sequence Send to blast
MGNSDEGDRL PAPSSSDELS SILRQVLSRT PTAQPSFSPK KIVSSAEMFN RTFPLVPGGA 60 VSYAACAVAE TGEGKCGFEN KRNGARQRNS LKRNIDAQFH TLSEKRRRSK INEKMKALQK 120 LIPNSNKVTD KASMLDEAIE YLKQLQLQFQ TLAAMNGLGL NPLRLPPILP PTQTGITGTS 180 EQGLNLETLL GGSHSMANLE PPEPTQEMCF PTTTLL*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed constitutively in roots, leaves, stems, and flowers. Confined to the valve margins of the silique. {ECO:0000269\|PubMed:11747817, ECO:0000269\|PubMed:12679534}.

Functional Description ? help Back to Top
Source	Description
UniProt	Required for the dehiscence of fruit, especially for the separation of the valve cells from the replum. Promotes the differentiation of a strip of labile nonlignified cells sandwiched between layers of lignified cells. {ECO:0000269\|PubMed:11747817}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00070429001

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_013686239.1	1e-158	transcription factor ALC isoform X1
Swissprot	Q9FHA2	1e-102	ALC_ARATH; Transcription factor ALC
TrEMBL	A0A078FIJ1	1e-156	A0A078FIJ1_BRANA; BnaC07g16290D protein
STRING	Bra012133.1-P	1e-131	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13982	17	24

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G67110.1	3e-91	bHLH family protein

Link Out ? help Back to Top
Entrez Gene	106390344

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] 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] He H, et al. CELLULASE6 and MANNANASE7 Affect Cell Differentiation and Silique Dehiscence. Plant Physiol., 2018. 176(3): p. 2186-2201 [PMID:29348141]