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

Csa12g061620.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina

Family

bHLH

Protein Properties

Length: 116aa MW: 12731.5 Da PI: 9.8896

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa12g061620.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	36.5	8.6e-12	38	78	10	55
HHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 10 rrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 r+RR++iN+++ +L+ l+P+ +K++ +++Le+Av+Y+k Lq Csa12g061620.1 38 RKRREKINERLKTLQNLVPNG-----TKVDISTMLEEAVHYVKFLQ 78 9****************97.....8****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	1.57E-15	28	93	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.173	28	77	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	3.1E-15	32	93	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	3.0E-12	34	83	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.66E-11	37	82	No hit	No description
Pfam	PF00010	3.7E-9	38	78	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: 116 aa Download sequence Send to blast
GQSLSNSSDD EKASVTSVKG KTIATKGTAT DTQSLYARKR REKINERLKT LQNLVPNGTK 60 VDISTMLEEA VHYVKFLQLQ IKLLSSEDDA NQSESFAFMK FLFLCRVAAS LAKLS*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	37	42	RKRREK

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa12g061620.1

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	AB493481	1e-114	AB493481.1 Arabidopsis thaliana At1g27740 mRNA for hypothetical protein, partial cds, clone: RAAt1g27740.
GenBank	AY085436	1e-114	AY085436.1 Arabidopsis thaliana clone 151587 mRNA, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_564293.1	2e-52	root hair defective 6-like 4
Refseq	XP_002890747.1	2e-52	transcription factor bHLH54
Refseq	XP_006304444.1	2e-52	transcription factor bHLH54
Refseq	XP_010499270.1	7e-53	PREDICTED: transcription factor bHLH54-like
Swissprot	Q8LEG1	2e-53	BH054_ARATH; Transcription factor bHLH54
TrEMBL	A0A1J3GSA2	3e-53	A0A1J3GSA2_NOCCA; Transcription factor bHLH54 (Fragment)
TrEMBL	A0A1J3IJB7	2e-52	A0A1J3IJB7_NOCCA; Transcription factor bHLH54 (Fragment)
STRING	AT1G27740.1	7e-52	(Arabidopsis thaliana)
STRING	fgenesh2_kg.1__2933__AT1G27740.1	8e-52	(Arabidopsis lyrata)
STRING	Bostr.15697s0100.1.p	7e-52	(Boechera stricta)
STRING	XP_006304444.1	7e-52	(Capsella rubella)
STRING	XP_010499270.1	3e-52	(Camelina sativa)

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	4e-45	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] 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]