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

Thhalv10028925m

Common Name

EUTSA_v10028925mg

Organism

Eutrema salsugineum

Taxonomic ID

72664

Taxonomic Lineage

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

Family

YABBY

Protein Properties

Length: 238aa MW: 26063.7 Da PI: 8.2613

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thhalv10028925m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	268.6	8.2e-83	17	197	2	170
YABBY 2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkee.....lleelkveeenlksnvekee 90 d+ ss +q+ yv+C+fC+t+lavsvP +slfk+vtvrCGhC++llsv++++++ ll+ +s+l++s+ ++ llee+++ ++n+++n+++++ Thhalv10028925m 17 DHISSLDQLGYVHCSFCDTVLAVSVPPSSLFKTVTVRCGHCSNLLSVTVNMRALLLPPVSNLGHSFLPPpppcnLLEEMRNGGQNINMNMMMSH 110 788999***********************************************************9999999**************** PP YABBY 91 sastsvssekl.......senedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkihfgl 170 +a +++s+e+l + +e +pr+pp++rPPekrqrvPsaynrfikeeiqrika+nPdishreafsaaaknWahfP+ihfgl Thhalv10028925m 111 QAAAHHSNESLvmatrngRVDPQELMPRPPPANRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 197 ****9999999998889999***********************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	9.1E-67	22	197	IPR006780	YABBY protein
SuperFamily	SSF47095	6.28E-8	142	191	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	8.8E-5	145	191	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: 238 aa Download sequence Send to blast
MSSMSMSSSS DPAYPPDHIS SLDQLGYVHC SFCDTVLAVS VPPSSLFKTV TVRCGHCSNL 60 LSVTVNMRAL LLPPVSNLGH SFLPPPPPCN LLEEMRNGGQ NINMNMMMSH QAAAHHSNES 120 LVMATRNGRV DPQELMPRPP PANRPPEKRQ RVPSAYNRFI KEEIQRIKAG NPDISHREAF 180 SAAAKNWAHF PHIHFGLMPD HPPTKKANVR QQEGEDVMLG REGFYGSSAA 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	Thhalv10028925m

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_024009858.1	1e-177	axial regulator YABBY 3 isoform X2
Swissprot	Q9XFB1	1e-132	YAB3_ARATH; Axial regulator YABBY 3
TrEMBL	V4KIK5	1e-175	V4KIK5_EUTSA; Uncharacterized protein
STRING	XP_006396217.1	1e-176	(Eutrema salsugineum)

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

Link Out ? help Back to Top
Phytozome	Thhalv10028925m
Entrez Gene	18015145

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]