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

GSBRNA2T00060660001

Common Name

GSBRNA2T00060660001

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: 287aa MW: 30125.9 Da PI: 9.6282

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00060660001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	36.4	9.1e-12	99	144	5	55
HHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 5 hnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 h+++Er RR+ri +++ L+el+P+ K +Ka++L + +eY++ Lq GSBRNA2T00060660001 99 HSIAERLRRERIAERMKSLQELVPNT-----NKTDKASMLDEIIEYVRFLQ 144 99*********************7.....5****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	6.15E-17	92	153	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.54E-12	92	148	No hit	No description
PROSITE profile	PS50888	17.028	94	143	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.4E-16	96	153	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	4.3E-9	99	144	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	5.2E-13	100	149	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: 287 aa Download sequence Send to blast
MEKGNGEGKG EFINQNSNGF FHDSMSMLSS LPPPWGSSLP PSPPPHSLLH ALTESGGPTT 60 GSQDGLQHAQ GTVSTTTSPP VARQKPRVRA RRGQATDPHS IAERLRRERI AERMKSLQEL 120 VPNTNKTDKA SMLDEIIEYV RFLQLQVKVL SMSRLGAAGG IRPRLNGLTS DVGGRLNALS 180 VPSNGVVNGN GNATGSSNGS LRTTEQRVAK LMEEDMGSAM QYLQGKGLCL MPIALATAMS 240 SSSAHSRGAL FNPTSNVVAT EEANVVVAAA PEASSPMDDV SASNKA*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	103	108	RLRRER

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.24642	0.0	root

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in trichomes of the root maturation zone. Detected constitutively in flowers. {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:16581911}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00060660001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by heat treatment. {ECO:0000269\|PubMed:12679534}.

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	AC189451	1e-164	AC189451.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB071P24, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013740270.2	1e-174	transcription factor bHLH82
Swissprot	Q9LSQ3	1e-151	BH082_ARATH; Transcription factor bHLH82
TrEMBL	A0A078FEX9	0.0	A0A078FEX9_BRANA; BnaC03g12620D protein
STRING	Bo3g018990.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM11585	17	33

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G58010.1	1e-102	LJRHL1-like 3

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] 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] Tam TH,Catarino B,Dolan L Conserved regulatory mechanism controls the development of cells with rooting functions in land plants. Proc. Natl. Acad. Sci. U.S.A., 2015. 112(29): p. E3959-68 [PMID:26150509] Zhang J, et al. Sperm cells are passive cargo of the pollen tube in plant fertilization. Nat Plants, 2017. 3: p. 17079 [PMID:28585562]