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

BGIOSGA005951-PA

Common Name

OsI_08248

Organism

Oryza sativa subsp. indica

Taxonomic ID

39946

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa

Family

YABBY

Protein Properties

Length: 286aa MW: 30387.8 Da PI: 8.7698

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
BGIOSGA005951-PA	genome	RIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	184.1	7.5e-57	20	203	5	161
YABBY 5 ssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshl.deslkee.....................lleel 75 s +eq+Cyv+Cn C+tilav vP +slfk+vtvrCGhC++llsvnl+ +a + ++ ++ l+e+ BGIOSGA005951-PA 20 SPTEQLCYVHCNCCDTILAVGVPCSSLFKTVTVRCGHCANLLSVNLRGLLLPAPAPAPAnQLHFGPSllsptsphglldevafqtpslLMEQA 112 579******************************************9996666544320445555577778999977777776665323322 PP YABBY 76 kveeenlksnvekeesastsvssekl....senedeevprvpp..virPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWa 161 +++ + + +++++as+ +++++ + +++ e+p+ p ++rPPekrqrvPsaynrfik+eiqrika+nPdishreafsaaakn BGIOSGA005951-PA 113 ASASLSSITGRSSSSCASNA-PAMQMppakPVQQEPELPKNAPasANRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNRQ 203 22222222222233333333.3333478777888899999877678******************************************75 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	5.1E-61	21	203	IPR006780	YABBY protein
SuperFamily	SSF47095	5.03E-6	151	200	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: 286 aa Download sequence Send to blast
MSSSSSSSAV FPLDHLAAPS PTEQLCYVHC NCCDTILAVG VPCSSLFKTV TVRCGHCANL 60 LSVNLRGLLL PAPAPAPANQ LHFGPSLLSP TSPHGLLDEV AFQTPSLLME QAASASLSSI 120 TGRSSSSCAS NAPAMQMPPA KPVQQEPELP KNAPASANRP PEKRQRVPSA YNRFIKDEIQ 180 RIKAGNPDIS HREAFSAAAK NRQLVPGRLR DAESKRLWFL GAFSPTAAIA RWAHFPHIHF 240 GLMPDQGFKK TFKPQDGSED ILLKDSLYAA AAAAAAAAAN MGVTPF

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Os.54793	0.0	panicle\| seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Preferentially expressed in immature organs containing meristems and organ primordia. Expressed in phloem of developing vascular tissues of young seedling shoots. Expressed in the phloem of midvein vasculature of young leaves. Does not show polar expression pattern in leaf primordia. {ECO:0000269\|PubMed:17216490, ECO:0000269\|PubMed:17676337}.

Functional Description ? help Back to Top
Source	Description
UniProt	Seems to be associated with phloem cell differentiation. {ECO:0000269\|PubMed:17676337}.

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	AB274016	0.0	AB274016.1 Oryza sativa Japonica Group OsYABBY4 mRNA for OsYABBY4 protein, complete cds.
GenBank	AK106784	0.0	AK106784.1 Oryza sativa Japonica Group cDNA clone:002-115-H10, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015622736.1	0.0	protein YABBY 4
Swissprot	A2X7Q3	0.0	YAB4_ORYSI; Protein YABBY 4
Swissprot	Q6H668	0.0	YAB4_ORYSJ; Protein YABBY 4
TrEMBL	B8AG01	0.0	B8AG01_ORYSI; Uncharacterized protein
TrEMBL	B9F1C1	0.0	B9F1C1_ORYSJ; Uncharacterized protein
STRING	OGLUM02G26190.1	1e-180	(Oryza glumipatula)
STRING	OMERI02G24350.1	1e-180	(Oryza meridionalis)
STRING	OS02T0643200-01	1e-180	(Oryza sativa)
STRING	ONIVA02G28110.1	1e-180	(Oryza nivara)
STRING	ORGLA02G0220100.1	1e-180	(Oryza glaberrima)
STRING	OBART02G25670.1	1e-180	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1445	38	121

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G45190.1	7e-55	YABBY family protein

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Yang C,Ma Y,Li J The rice YABBY4 gene regulates plant growth and development through modulating the gibberellin pathway. J. Exp. Bot., 2016. 67(18): p. 5545-5556 [PMID:27578842]