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

GSBRNA2T00050059001

Common Name

GSBRNA2T00050059001

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: 231aa MW: 26120.6 Da PI: 8.471

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00050059001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	24.2	6.1e-08	138	177	11	55
HHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 11 rRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +RR++iN+++ + + l+P+ +K++ +++Le+Av+Y+k Lq GSBRNA2T00050059001 138 KRRKKINERLKTQQNLVPNG-----TKVDISTMLEEAVHYVKFLQ 177 7***************97.....8****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	12.976	127	176	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.6E-5	133	182	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	2.88E-9	135	183	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.5E-5	138	177	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	5.0E-9	138	181	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	2.39E-8	138	181	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0016021	Cellular Component	integral component of membrane
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 231 aa Download sequence Send to blast
MDVFVDGELE SLLGMFNFDQ CSSSKEEKPQ DEMLSLSSLY NGHLRHHHQN NRKQLHVENP 60 HNSNSNCDVT RQELVKAKKK QRVNQESNTV DESNTNWRDG QSQSNSSDDE KASVTSAKGK 120 TRATKGTATD PQSLYALKRR KKINERLKTQ QNLVPNGTKV DISTMLEEAV HYVKFLQLQI 180 KVCTIFFSLW MYSPLAYSGL DMGFITTFCL GSCEGLVIQV IYNLIVKKPI *

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed constitutively in roots, leaves, and flowers. {ECO:0000269\|PubMed:12679534}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00050059001

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_013655117.1	1e-124	transcription factor bHLH54-like
Refseq	XP_022576046.1	1e-124	transcription factor bHLH54-like
Swissprot	Q8LEG1	1e-107	BH054_ARATH; Transcription factor bHLH54
TrEMBL	A0A078FFN1	1e-172	A0A078FFN1_BRANA; BnaC03g57760D protein
STRING	Bra010921.1-P	1e-123	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4132	22	57

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G27740.1	2e-97	root hair defective 6-like 4

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] Han Y, et al. Altered expression of TaRSL4 gene by genome interplay shapes root hair length in allopolyploid wheat. New Phytol., 2016. 209(2): p. 721-32 [PMID:26334764] Datta S,Prescott H,Dolan L Intensity of a pulse of RSL4 transcription factor synthesis determines Arabidopsis root hair cell size. Nat Plants, 2015. 1: p. 15138 [PMID:27251390] Song L, et al. The Molecular Mechanism of Ethylene-Mediated Root Hair Development Induced by Phosphate Starvation. PLoS Genet., 2016. 12(7): p. e1006194 [PMID:27427911] Vijayakumar P,Datta S,Dolan L ROOT HAIR DEFECTIVE SIX-LIKE4 (RSL4) promotes root hair elongation by transcriptionally regulating the expression of genes required for cell growth. New Phytol., 2016. 212(4): p. 944-953 [PMID:27452638] Hwang Y,Choi HS,Cho HM,Cho HT Tracheophytes Contain Conserved Orthologs of a Basic Helix-Loop-Helix Transcription Factor That Modulate ROOT HAIR SPECIFIC Genes. Plant Cell, 2017. 29(1): p. 39-53 [PMID:28087829] Marzol E,Borassi C,Denita Juárez SP,Mangano S,Estevez JM RSL4 Takes Control: Multiple Signals, One Transcription Factor. Trends Plant Sci., 2017. 22(7): p. 553-555 [PMID:28487046] Stanley CE, et al. Dual-flow-RootChip reveals local adaptations of roots towards environmental asymmetry at the physiological and genetic levels. New Phytol., 2018. 217(3): p. 1357-1369 [PMID:29125191] Feng Y, et al. Ethylene promotes root hair growth through coordinated EIN3/EIL1 and RHD6/RSL1 activity in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 2017. 114(52): p. 13834-13839 [PMID:29233944] Shibata M, et al. GTL1 and DF1 regulate root hair growth through transcriptional repression of ROOT HAIR DEFECTIVE 6-LIKE 4 in Arabidopsis. Development, 2018. [PMID:29439132]