PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.2NG043900.1.p
Organism
Panicum virgatum
Taxonomic ID
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: 169aa    MW: 19007.4 Da    PI: 9.0352
Description YABBY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2NG043900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1YABBY227.73e-7021582170
                YABBY   2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkeelleelkveeenlksnvekees 91 
                          +++++se+vCyv+Cn+Cntil+v+vP+t+++++vtv+CGhCt+ ls++l+ ++q++ + ++       ++++++++++ n    +e  + 
  Pavir.2NG043900.1.p   2 STQFASEHVCYVNCNYCNTILVVNVPNTCSYNIVTVKCGHCTMALSMDLSPFHQARIVPDN-------QVVQNRGFHQYNNFGSYEPASR 84 
                          67899*****************************************************997.......7999999988665555555556 PP

                YABBY  92 astsvsseklsenedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkihfgl 170
                          + +++s++++s+n+ +  p     +rPPekrqrvPsaynrfikeeiqrik+snP+ishreafsaaaknWah+P++hfgl
  Pavir.2NG043900.1.p  85 NLRNQSMYQMSNNQPQVQP-----MRPPEKRQRVPSAYNRFIKEEIQRIKTSNPEISHREAFSAAAKNWAHLPRLHFGL 158
                          6677788899999988877.....7****************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046903.0E-626158IPR006780YABBY protein
SuperFamilySSF470951.31E-8100152IPR009071High mobility group box domain
Gene3DG3DSA:1.10.30.105.7E-6104152IPR009071High mobility group box domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0007275Biological Processmulticellular organism development
GO:0010158Biological Processabaxial cell fate specification
Sequence ? help Back to Top
Protein Sequence    Length: 169 aa     Download sequence    Send to blast
MSTQFASEHV CYVNCNYCNT ILVVNVPNTC SYNIVTVKCG HCTMALSMDL SPFHQARIVP  60
DNQVVQNRGF HQYNNFGSYE PASRNLRNQS MYQMSNNQPQ VQPMRPPEKR QRVPSAYNRF  120
IKEEIQRIKT SNPEISHREA FSAAAKNWAH LPRLHFGLSV ADGGGGSS*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.106960.0leaf
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Detected throughout panicle development with the strongest expression in immature panicles, and weakest in mature panicles. Abundantly found in the stamen and carpel primordia of young spikelets. {ECO:0000269|PubMed:15604733, ECO:0000269|PubMed:17216490}.
UniprotTISSUE SPECIFICITY: Preferentially expressed in flowers. Expressed in leaf blades and leaf sheaths. Does not show polar expression pattern. {ECO:0000269|PubMed:15604733}.
Functional Description ? help Back to Top
Source Description
UniProtMay play a role in floral meristem development and maintenance of stamens, rather than in determining polarity in floral organs. {ECO:0000269|PubMed:15604733, ECO:0000269|PubMed:17369428}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.2NG043900.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU9631491e-164EU963149.1 Zea mays clone 258350 protein YABBY mRNA, complete cds.
GenBankEU9706581e-164EU970658.1 Zea mays clone 348580 protein YABBY mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025802461.11e-120protein YABBY 1-like
SwissprotQ7XIM75e-95YAB1_ORYSJ; Protein YABBY 1
TrEMBLA0A2S3GVT11e-119A0A2S3GVT1_9POAL; Uncharacterized protein
TrEMBLA0A2T7EKU41e-119A0A2T7EKU4_9POAL; Uncharacterized protein
STRINGPavir.Ba03779.1.p1e-124(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP139437121
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G08465.12e-56YABBY family protein
Publications ? help Back to Top
  1. 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]
  2. Ohmori Y,Abiko M,Horibata A,Hirano HY
    A transposon, Ping, is integrated into intron 4 of the DROOPING LEAF gene of rice, weakly reducing its expression and causing a mild drooping leaf phenotype.
    Plant Cell Physiol., 2008. 49(8): p. 1176-84
    [PMID:18593744]
  3. Ohmori Y,Toriba T,Nakamura H,Ichikawa H,Hirano HY
    Temporal and spatial regulation of DROOPING LEAF gene expression that promotes midrib formation in rice.
    Plant J., 2011. 65(1): p. 77-86
    [PMID:21175891]
  4. Li H, et al.
    Rice MADS6 interacts with the floral homeotic genes SUPERWOMAN1, MADS3, MADS58, MADS13, and DROOPING LEAF in specifying floral organ identities and meristem fate.
    Plant Cell, 2011. 23(7): p. 2536-52
    [PMID:21784949]
  5. Tanaka W, et al.
    The YABBY gene TONGARI-BOUSHI1 is involved in lateral organ development and maintenance of meristem organization in the rice spikelet.
    Plant Cell, 2012. 24(1): p. 80-95
    [PMID:22286138]
  6. 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]