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

Pavir.7NG342100.1.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

YABBY

Protein Properties

Length: 277aa MW: 29110.4 Da PI: 7.4177

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.7NG342100.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	179.4	2.1e-55	26	229	6	170
YABBY 6 sseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakas..qllaaeshldeslkee....................... 70 eq+Cyv+C+ C+tilav vP +slfk+vtvrCGhC +llsvnl+ ++ aa++++ + ++ Pavir.7NG342100.1.p 26 EQEQLCYVHCKCCDTILAVGVPCSSLFKTVTVRCGHCGNLLSVNLRGLLlpTAAAATNQIPFGGGQQqallsptsphglldemmlpfqqa 115 579*****************************************99844455566666555555578889999999766666666655 PP YABBY 71 ...........lleelkveeenlksnvekeesastsvssekl......................senedeevprvpp.virPPekrqrvP 126 st +s ++ +e + +p+ ++ ekrqrvP Pavir.7NG342100.1.p 116 pslpsaepasaC--------------------VSTITSINNScgggnndapvmlsmapppqvkpAPQEPQLLPKSTAsGNKSSEKRQRVP 185 544432222221....................22222222223333333444456677776665556667777766658******* PP YABBY 127 saynrfikeeiqrikasnPdishreafsaaaknWahfPkihfgl 170 saynrfik+eiqrikasnPdi+hreafsaaaknWahfP+ihfgl Pavir.7NG342100.1.p 186 SAYNRFIKDEIQRIKASNPDITHREAFSAAAKNWAHFPQIHFGL 229 ****************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	9.4E-63	26	229	IPR006780	YABBY protein
SuperFamily	SSF47095	5.76E-8	167	223	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	1.5E-4	176	224	IPR009071	High mobility group box domain
CDD	cd00084	8.78E-5	183	219	No hit	No description

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: 277 aa Download sequence Send to blast
MMSSVPVPEM FAVDQHLAPQ QPAAVEQEQL CYVHCKCCDT ILAVGVPCSS LFKTVTVRCG 60 HCGNLLSVNL RGLLLPTAAA ATNQIPFGGG QQQALLSPTS PHGLLDEMML PFQQAPSLPS 120 AEPASACVST ITSINNSCGG GNNDAPVMLS MAPPPQVKPA PQEPQLLPKS TASGNKSSEK 180 RQRVPSAYNR FIKDEIQRIK ASNPDITHRE AFSAAAKNWA HFPQIHFGLM PDQGLKKTSI 240 QSQEGGEYML FKDGLYAAAA AAAAAAAAST MGIAPF*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pvr.9404	0.0	callus

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in leaf primordia, young leaves, floret meristems, floral organ primordia, stamens and carpels. Does not show polar expression pattern. {ECO:0000269\|PubMed:17216490, ECO:0000269\|PubMed:17351053}.

Functional Description ? help Back to Top
Source	Description
UniProt	May be involved in leaf cell growth and differentiation, rather than abaxial cell fate determination. {ECO:0000250}.
UniProt	May be involved in leaf cell growth and differentiation, rather than abaxial cell fate determination. {ECO:0000269\|PubMed:17351053}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.7NG342100.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by WOX3. {ECO:0000269\|PubMed:17351053}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025825940.1	1e-155	protein YABBY 5-like
Swissprot	Q01JG2	1e-112	YAB5_ORYSI; Protein YABBY 5
Swissprot	Q0JBF0	1e-112	YAB5_ORYSJ; Protein YABBY 5
TrEMBL	A0A3L6PYL5	1e-162	A0A3L6PYL5_PANMI; Protein YABBY 5-like
STRING	Pavir.Gb00743.1.p	0.0	(Panicum virgatum)

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	6e-52	YABBY family protein

Link Out ? help Back to Top
Phytozome	Pavir.7NG342100.1.p

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] Khanday I, et al. Genome-Wide Targets Regulated by the OsMADS1 Transcription Factor Reveals Its DNA Recognition Properties. Plant Physiol., 2016. 172(1): p. 372-88 [PMID:27457124]