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

Tp6g00240

Organism

Thellungiella parvula

Taxonomic ID

98039

Taxonomic Lineage

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

Family

YABBY

Protein Properties

Length: 237aa MW: 25917.6 Da PI: 8.7632

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp6g00240	genome	thellungiella	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	271	1.5e-83	17	198	2	170
YABBY 2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkee.......lleelkveeenlksnvekeesast 94 d+ sss+q+Cyv+C fC+t+lavsvP +s+fk+vtvrCGhC++llsv++++++ ll+ +s+l++s ++ llee+++ ++n+++ ++++++a + Tp6g00240 17 DHISSSDQLCYVHCRFCDTVLAVSVPPSSVFKTVTVRCGHCSNLLSVTVNMRALLLPPVSNLGHSSLPPppppplnLLEEMRNGGQNINMSMMMSHQAAA 116 7899************************************************************99999************************* PP YABBY 95 svssekl......senedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkihfgl 170 ++sse+l + + +e+pr+ p++rPPekrqrvPsaynrfikeeiqrika+nPdishreafsaaaknWahfP+ihfgl Tp6g00240 117 HHSSESLvmasrsGRVDLQEMPRPAPANRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 198 999889776566889***********************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	1.4E-68	21	198	IPR006780	YABBY protein
SuperFamily	SSF47095	7.33E-8	144	192	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	8.8E-5	146	192	IPR009071	High mobility group box domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009944	Biological Process	polarity specification of adaxial/abaxial axis
GO:0010154	Biological Process	fruit development
GO:0010158	Biological Process	abaxial cell fate specification
GO:1902183	Biological Process	regulation of shoot apical meristem development
GO:2000024	Biological Process	regulation of leaf development

Sequence ? help Back to Top
Protein Sequence Length: 237 aa Download sequence Send to blast
MSSMSMSSSS APAYPPDHIS SSDQLCYVHC RFCDTVLAVS VPPSSVFKTV TVRCGHCSNL 60 LSVTVNMRAL LLPPVSNLGH SSLPPPPPPP LNLLEEMRNG GQNINMSMMM SHQAAAHHSS 120 ESLVMASRSG RVDLQEMPRP APANRPPEKR QRVPSAYNRF IKEEIQRIKA GNPDISHREA 180 FSAAAKNWAH FPHIHFGLMP DHPPTKKANV RQQEGEDVMM GREGLYGSAA NVGVTHN

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	Tp6g00240

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_009111513.1	1e-140	PREDICTED: axial regulator YABBY 3 isoform X2
Refseq	XP_013693643.1	1e-140	axial regulator YABBY 3 isoform X2
Refseq	XP_022569643.1	1e-140	axial regulator YABBY 3 isoform X2
Swissprot	Q9XFB1	1e-133	YAB3_ARATH; Axial regulator YABBY 3
TrEMBL	A0A1J3CNM2	1e-139	A0A1J3CNM2_NOCCA; Axial regulator YABBY 3
STRING	Bra037320.1-P	1e-139	(Brassica rapa)

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-121	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]