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 RrC9704_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family YABBY
Protein Properties Length: 164aa    MW: 18029.6 Da    PI: 7.9391
Description YABBY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC9704_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1YABBY135.28.2e-42171562135
       YABBY   2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkee.....lleelkveeenlksnvekeesasts 95 
                 d+ sss+q+Cyv+C+fC+t+lavsvP +slfk+vtvrCGhC++llsv++++++ ll+++s++++s+ ++     llee+++ ++n+++n+++++++ ++
  RrC9704_p1  17 DHISSSDQLCYVHCSFCDTVLAVSVPPSSLFKTVTVRCGHCSNLLSVTVNMRALLLPSVSNIGHSYLPSppppnLLEEMRNGGQNINMNMMMNHQPAAH 115
                 7899**************************************************************99889999************************9 PP

       YABBY  96 vssekl...senedeevprvppvi.rPPekrqrvPsaynrfike 135
                 +s+e++   +   ++     +++   PP  r+ +Ps+   f   
  RrC9704_p1 116 HSNESFvmaT---RNGRVDLQEMPrPPPANRRNIPSSLSLFQHL 156
                 9998874432...333333333330577899999*998888655 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046901.1E-2721155IPR006780YABBY protein
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0007275Biological Processmulticellular organism development
Sequence ? help Back to Top
Protein Sequence    Length: 164 aa     Download sequence    Send to blast
MSSMSMSSSS APTYPPDHIS SSDQLCYVHC SFCDTVLAVS VPPSSLFKTV TVRCGHCSNL  60
LSVTVNMRAL LLPSVSNIGH SYLPSPPPPN LLEEMRNGGQ NINMNMMMNH QPAAHHSNES  120
FVMATRNGRV DLQEMPRPPP ANRRNIPSSL SLFQHLETKE KNPN
Functional Description ? help Back to Top
Source Description
UniProtInvolved 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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF1365401e-101AF136540.1 Arabidopsis thaliana YABBY3 (YABBY3) mRNA, complete cds.
GenBankAY0371861e-101AY037186.1 Arabidopsis thaliana AT4g00180/F6N15_22 mRNA, complete cds.
GenBankBT0026621e-101BT002662.1 Arabidopsis thaliana At4g00180/F6N15_22 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009111513.14e-73PREDICTED: axial regulator YABBY 3 isoform X2
RefseqXP_013693643.14e-73axial regulator YABBY 3 isoform X2
RefseqXP_022569643.14e-73axial regulator YABBY 3 isoform X2
SwissprotQ9XFB13e-67YAB3_ARATH; Axial regulator YABBY 3
TrEMBLA0A078JBF79e-72A0A078JBF7_BRANA; BnaAnng18530D protein
TrEMBLA0A397XXC69e-72A0A397XXC6_BRACM; Uncharacterized protein
TrEMBLM4F8A89e-72M4F8A8_BRARP; Uncharacterized protein
STRINGBra037320.1-P2e-72(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM22172877
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G00180.13e-52YABBY family protein
Publications ? help Back to Top
  1. 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]
  2. Yadav RK, et al.
    Plant stem cell maintenance involves direct transcriptional repression of differentiation program.
    Mol. Syst. Biol., 2013. 9: p. 654
    [PMID:23549482]