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

Csa08g001240.1

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

YABBY

Protein Properties

Length: 237aa MW: 25849.4 Da PI: 8.5068

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa08g001240.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	277.9	1.1e-85	17	194	2	170
YABBY 2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkee......lleelkveeenlksnvekee 90 d+ ss++q+Cyv+C+fC+t+lavsvP +slfk+vtvrCGhC++llsv++++++ ll+++s++++s+ ++ llee+++ ++ +++n+++++ Csa08g001240.1 17 DHISSTDQLCYVHCSFCDTVLAVSVPPSSLFKTVTVRCGHCSNLLSVTVNMRTLLLPSVSNIGHSFIPPpppppnLLEEMRSGGQYINMNMMMSH 111 7899************************************************************999999999**************** PP YABBY 91 sastsvssekl...senedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkihfgl 170 + +++++e+l +n +e+pr+pp++rPPekrqrvPsaynrfikeeiqrika+nPdishreafsaaaknWahfP+ihfgl Csa08g001240.1 112 HGAAHHPNESLamaARNGLQEMPRPPPANRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 194 ****99977788999************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	4.7E-68	21	194	IPR006780	YABBY protein
SuperFamily	SSF47095	7.85E-8	139	187	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	8.7E-5	142	188	IPR009071	High mobility group box domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0007275	Biological Process	multicellular organism development

Sequence ? help Back to Top
Protein Sequence Length: 237 aa Download sequence Send to blast
MSSMSMSSSS APAYPPDHIS STDQLCYVHC SFCDTVLAVS VPPSSLFKTV TVRCGHCSNL 60 LSVTVNMRTL LLPSVSNIGH SFIPPPPPPP NLLEEMRSGG QYINMNMMMS HHGAAHHPNE 120 SLAMAARNGL QEMPRPPPAN RPPEKRQRVP SAYNRFIKEE IQRIKAGNPD ISHREAFSAA 180 AKNWAHFPHI HFGLMADHPP TKKANVRQQQ QEGEDGMMGS REGFYGSAAN VGVTNN*

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in the abaxial cell fate determination during embryogenesis and organogenesis. Regulates the initiation of embryonic shoot apical meristem (SAM) development (PubMed:10457020, PubMed:12417699, PubMed:19837869). Contributes to the repression of KNOX genes (STM, KNAT1/BP and KNAT2) to avoid ectopic meristems. Binds DNA without sequence specificity (PubMed:10457020, PubMed:12417699). {ECO:0000269\|PubMed:10457020, ECO:0000269\|PubMed:12417699, ECO:0000269\|PubMed:19837869}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa08g001240.1

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	AF136540	0.0	AF136540.1 Arabidopsis thaliana YABBY3 (YABBY3) mRNA, complete cds.
GenBank	AY037186	0.0	AY037186.1 Arabidopsis thaliana AT4g00180/F6N15_22 mRNA, complete cds.
GenBank	BT002662	0.0	BT002662.1 Arabidopsis thaliana At4g00180/F6N15_22 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010419551.1	1e-176	PREDICTED: axial regulator YABBY 3-like isoform X2
Swissprot	Q9XFB1	1e-134	YAB3_ARATH; Axial regulator YABBY 3
TrEMBL	D7M5S0	1e-137	D7M5S0_ARALL; Uncharacterized protein
STRING	XP_010419550.1	1e-152	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2217	28	77

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G00180.1	1e-135	YABBY family protein

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Yadav RK, et al. Plant stem cell maintenance involves direct transcriptional repression of differentiation program. Mol. Syst. Biol., 2013. 9: p. 654 [PMID:23549482]