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 Araha.27810s0005.1.p
Organism
Arabidopsis halleri
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family YABBY
Protein Properties Length: 240aa    MW: 26236.8 Da    PI: 8.524
Description YABBY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.27810s0005.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1YABBY271.88.3e-84172002170
                 YABBY   2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkee........lleelkveeenl 82 
                           d+fssseq+Cyv+C+fC+t+lavsvP +slfk+vtvrCGhC++llsv++++++ ll+++s+l++s+ ++        llee+++ ++n+
  Araha.27810s0005.1.p  17 DHFSSSEQLCYVHCSFCDTVLAVSVPPSSLFKTVTVRCGHCSNLLSVTVSMRALLLPSVSNLGHSFLPPppppsppnLLEEMRSGGQNI 105
                           89*****************************************************************9999****************** PP

                 YABBY  83 ksnvekeesastsvssekl.......senedeevprvppvirP.PekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahf 163
                           ++n++++++  +++++e+l         ++ +e+pr pp++rP PekrqrvPsaynrfikeeiqrika+nPdishreafsaaaknWahf
  Araha.27810s0005.1.p 106 NMNMMMSHHGAAHHPNESLvmptrngRVDHVQEMPR-PPANRPaPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHF 193
                           *****************9999999999999*****9.7779988********************************************* PP

                 YABBY 164 Pkihfgl 170
                           P+ihfgl
  Araha.27810s0005.1.p 194 PHIHFGL 200
                           *****97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046901.6E-6621200IPR006780YABBY protein
SuperFamilySSF470951.57E-7147193IPR009071High mobility group box domain
Gene3DG3DSA:1.10.30.101.2E-4149194IPR009071High mobility group box domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0010154Biological Processfruit development
GO:0010158Biological Processabaxial cell fate specification
GO:1902183Biological Processregulation of shoot apical meristem development
GO:2000024Biological Processregulation of leaf development
Sequence ? help Back to Top
Protein Sequence    Length: 240 aa     Download sequence    Send to blast
MSSMSMSSSS APAFPPDHFS SSEQLCYVHC SFCDTVLAVS VPPSSLFKTV TVRCGHCSNL  60
LSVTVSMRAL LLPSVSNLGH SFLPPPPPPS PPNLLEEMRS GGQNINMNMM MSHHGAAHHP  120
NESLVMPTRN GRVDHVQEMP RPPANRPAPE KRQRVPSAYN RFIKEEIQRI KAGNPDISHR  180
EAFSAAAKNW AHFPHIHFGL MADHPPTKKA NVRQQEGEDS MMGREGFYGS TANVGVTHN*
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraha.27810s0005.1.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
GenBankAF1365400.0AF136540.1 Arabidopsis thaliana YABBY3 (YABBY3) mRNA, complete cds.
GenBankAY0371860.0AY037186.1 Arabidopsis thaliana AT4g00180/F6N15_22 mRNA, complete cds.
GenBankBT0026620.0BT002662.1 Arabidopsis thaliana At4g00180/F6N15_22 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020879069.11e-157axial regulator YABBY 3 isoform X2
SwissprotQ9XFB11e-147YAB3_ARATH; Axial regulator YABBY 3
TrEMBLD7M5S01e-155D7M5S0_ARALL; Uncharacterized protein
STRINGfgenesh2_kg.6__3684__AT4G00180.11e-156(Arabidopsis lyrata)
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
AT4G00180.11e-138YABBY 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]