PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.1NG370400.1.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: 260aa    MW: 27287.2 Da    PI: 8.0253
Description YABBY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG370400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1YABBY211.62.6e-65182165170
                YABBY   5 ssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkee........................ 70 
                          s +eq+Cyv+Cn C+tilav vP +slfk+vtvrCGhC++llsvnl+      aa    + s+                           
  Pavir.1NG370400.1.p  18 SPTEQLCYVHCNCCDTILAVGVPCSSLFKTVTVRCGHCANLLSVNLRGLLLPPAAPPANQLSFGGGgghsllsptsphglldefalqtps 107
                          578********************************************9996666555545555444557889999999*99999875444 PP

                YABBY  71 .lleelkveeenlksnvekeesastsvssekl...........senedeevprvpp.virPPekrqrvPsaynrfikeeiqrikasnPdi 147
                           l+    ++ ++  sn+++ +s+s+s +s++l           + +++ e+p+  p v+rPPekrqrvPsaynrfik+eiqrika+nPdi
  Pavir.1NG370400.1.p 108 lLM----DQASANLSNTITGRSNSSSCASNNLpaappmpaakpPVQQEPEIPKSAPsVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDI 193
                          322....222222234444444455555555555666788888899999***98777********************************* PP

                YABBY 148 shreafsaaaknWahfPkihfgl 170
                          +hreafsaaaknWahfP+ihfgl
  Pavir.1NG370400.1.p 194 THREAFSAAAKNWAHFPHIHFGL 216
                          *********************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046903.1E-6919216IPR006780YABBY protein
SuperFamilySSF470958.12E-8155209IPR009071High mobility group box domain
Gene3DG3DSA:1.10.30.103.5E-4165208IPR009071High mobility group box domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009909Biological Processregulation of flower development
GO:0009933Biological Processmeristem structural organization
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0010093Biological Processspecification of floral organ identity
GO:0010154Biological Processfruit development
GO:0010158Biological Processabaxial cell fate specification
GO:0010159Biological Processspecification of organ position
GO:0010450Biological Processinflorescence meristem growth
GO:1902183Biological Processregulation of shoot apical meristem development
GO:2000024Biological Processregulation of leaf development
Sequence ? help Back to Top
Protein Sequence    Length: 260 aa     Download sequence    Send to blast
MMSSSSSAAF PLDHLAPSPT EQLCYVHCNC CDTILAVGVP CSSLFKTVTV RCGHCANLLS  60
VNLRGLLLPP AAPPANQLSF GGGGGHSLLS PTSPHGLLDE FALQTPSLLM DQASANLSNT  120
ITGRSNSSSC ASNNLPAAPP MPAAKPPVQQ EPEIPKSAPS VNRPPEKRQR VPSAYNRFIK  180
DEIQRIKAGN PDITHREAFS AAAKNWAHFP HIHFGLMPDQ GLKKTFKTQD GAEDMLLKDG  240
LYAAAAAAAA AANMGITPF*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.103630.0stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE 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
UniProtSeems to be associated with phloem cell differentiation. {ECO:0000269|PubMed:17676337}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00620PBMTransfer from AT2G45190Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1NG370400.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU9607730.0EU960773.1 Zea mays clone 228481 yabby15 protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025828644.11e-149protein YABBY 4-like
SwissprotA2X7Q31e-122YAB4_ORYSI; Protein YABBY 4
SwissprotQ6H6681e-122YAB4_ORYSJ; Protein YABBY 4
TrEMBLA0A3L6QIB71e-158A0A3L6QIB7_PANMI; Uncharacterized protein
STRINGPavir.Aa01223.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP144538121
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G45190.18e-64YABBY 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. 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]