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

Csa12g004200.1

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: 396aa MW: 42869.6 Da PI: 7.0249

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa12g004200.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	50.7	3.3e-16	222	268	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 hn E+rRR+riN+++ L++l+P++ K +Ka++L +A+eY+k+Lq Csa12g004200.1 222 VHNLSEKRRRSRINEKMKALQSLIPNS-----NKTDKASMLDEAIEYLKQLQ 268 6***********************7.....5****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	1.11E-17	214	272	No hit	No description
SuperFamily	SSF47459	1.44E-19	216	277	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	18.063	218	267	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	8.4E-19	219	276	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.1E-13	222	268	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.0E-18	224	273	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: 396 aa Download sequence Send to blast
MPIKSQKLCF FKSFNCFSSA VMISQREERE EKRVMGDKKL ISFSSSSSSI YDTRNHHHHP 60 PPPPPSSSSD EISLFLRHIF DRSSPNLPSY YSPATTTTTM IGVHGDPHAD NSRCFVSDAA 120 AALMSSKRVG DFSEVLVGGS SAVGSASTAA CFGFNNNNNV QGNSSGTRVS SSSVGASGNE 180 TDEYDCESEE GGEAVVDEAP SSKSGGGPPS RSSSKRCRAA EVHNLSEKRR RSRINEKMKA 240 LQSLIPNSNK TDKASMLDEA IEYLKQLQLQ VQMLTVRNGI NLHPLCLPGT TLHPLQLSQI 300 RPQEATNDPL LSHTNQFAST SNAPEMINTV ASSYALEPSI RSHFGPFPLL TPSVEMNREG 360 GLTHQRLNIG HSNTNLTGEQ AVFDGQQPDL KDRLT*

Sequence ? help Back to Top

Protein Sequence Length: 396 aa Download sequence Send to blast

MPIKSQKLCF FKSFNCFSSA VMISQREERE EKRVMGDKKL ISFSSSSSSI YDTRNHHHHP  60
PPPPPSSSSD EISLFLRHIF DRSSPNLPSY YSPATTTTTM IGVHGDPHAD NSRCFVSDAA  120
AALMSSKRVG DFSEVLVGGS SAVGSASTAA CFGFNNNNNV QGNSSGTRVS SSSVGASGNE  180
TDEYDCESEE GGEAVVDEAP SSKSGGGPPS RSSSKRCRAA EVHNLSEKRR RSRINEKMKA  240
LQSLIPNSNK TDKASMLDEA IEYLKQLQLQ VQMLTVRNGI NLHPLCLPGT TLHPLQLSQI  300
RPQEATNDPL LSHTNQFAST SNAPEMINTV ASSYALEPSI RSHFGPFPLL TPSVEMNREG  360
GLTHQRLNIG HSNTNLTGEQ AVFDGQQPDL KDRLT*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that plays a role in floral organogenesis. Promotes the growth of carpel margins and of pollen tract tissues derived from them. {ECO:0000269\|PubMed:10225997, ECO:0000269\|Ref.8}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa12g004200.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by the A class gene AP2 in the first whorl and by ARF3/ETT in gynoecium. {ECO:0000269\|PubMed:11245574}.

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	AF319540	0.0	AF319540.1 Arabidopsis thaliana SPATULA (SPT) mRNA, complete cds.
GenBank	AK229267	0.0	AK229267.1 Arabidopsis thaliana mRNA for putative bHLH transcription factor (AtbHLH024) / SPATULA (SPT), complete cds, clone: RAFL16-54-P05.
GenBank	BT026462	0.0	BT026462.1 Arabidopsis thaliana At4g36930 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019088981.1	0.0	PREDICTED: transcription factor SPATULA-like isoform X2
Swissprot	Q9FUA4	1e-179	SPT_ARATH; Transcription factor SPATULA
TrEMBL	R0GJ30	0.0	R0GJ30_9BRAS; Uncharacterized protein
STRING	XP_010446691.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4199	27	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G36930.1	1e-162	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] Pabón-Mora N,Wong GK,Ambrose BA Evolution of fruit development genes in flowering plants. Front Plant Sci, 2014. 5: p. 300 [PMID:25018763] Moubayidin L,Ostergaard L Dynamic control of auxin distribution imposes a bilateral-to-radial symmetry switch during gynoecium development. Curr. Biol., 2014. 24(22): p. 2743-8 [PMID:25455035] 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] Reyes-Olalde JI, et al. The bHLH transcription factor SPATULA enables cytokinin signaling, and both activate auxin biosynthesis and transport genes at the medial domain of the gynoecium. PLoS Genet., 2017. 13(4): p. e1006726 [PMID:28388635] Wu M, et al. SPATULA regulates floral transition and photomorphogenesis in a PHYTOCHROME B-dependent manner in Arabidopsis. Biochem. Biophys. Res. Commun., 2018. 503(4): p. 2380-2385 [PMID:29966653]