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 GSBRNA2T00037886001
Common NameGSBRNA2T00037886001, LOC106397578
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family YABBY
Protein Properties Length: 239aa    MW: 26210.8 Da    PI: 8.5152
Description YABBY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00037886001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1YABBY277.51.5e-85171992170
                YABBY   2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkee........lleelkveeenlk 83 
                          d+ sss+q+Cyv+C+fC+t+lavsvP +slfk+vtvrCGhC++llsv++++++ ll+++s++++s+ ++        llee+++ ++n++
  GSBRNA2T00037886001  17 DHISSSDQLCYVHCSFCDTVLAVSVPPSSLFKTVTVRCGHCSNLLSVTVNMRALLLPSVSNIGHSFLPSpppppppnLLEEMRNGGQNIN 106
                          7899***************************************************************99999****************** PP

                YABBY  84 snvekeesastsvssekl......senedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkih 167
                          +n++++++a +++s+e++       + + +e+pr+pp++rPPekrqrvPsaynrfikeeiqrika+nPdishreafsaaaknWahfP+ih
  GSBRNA2T00037886001 107 MNMMMSHHAAAHHSNESFvmatrvRSVDLQEMPRPPPANRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIH 196
                          *************99887778887777899************************************************************ PP

                YABBY 168 fgl 170
                          fgl
  GSBRNA2T00037886001 197 FGL 199
                          *97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046903.1E-6921199IPR006780YABBY protein
SuperFamilySSF470957.07E-8144193IPR009071High mobility group box domain
Gene3DG3DSA:1.10.30.108.9E-5147193IPR009071High 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: 239 aa     Download sequence    Send to blast
MSSMSMSSSS APAYPPDHIS SSDQLCYVHC SFCDTVLAVS VPPSSLFKTV TVRCGHCSNL  60
LSVTVNMRAL LLPSVSNIGH SFLPSPPPPP PPNLLEEMRN GGQNINMNMM MSHHAAAHHS  120
NESFVMATRV RSVDLQEMPR PPPANRPPEK RQRVPSAYNR FIKEEIQRIK AGNPDISHRE  180
AFSAAAKNWA HFPHIHFGLM PDHPPTKKAN VRQQEGEEVM MGREGFYGSA ANVGVTHN*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in subepidermal cells of anlagen regions, then in abaxial part of primordia and finally in differentiating organs. Levels decrease in differentiated organs. In embryo the expression starts during the heart stage in the cotyledon anlagen. Later, expression expands to abaxial domain of the cotyledon primordia and decrease as the embryo matures. In stamen, expression restricted to the abaxial region differentiating into the connective. In gynoecium, expressed in the abaxial cell layers differentiating into the valves. {ECO:0000269|PubMed:10457020}.
UniprotTISSUE SPECIFICITY: Expressed in abaxial regions of lateral aerial organ primordia leading to cotyledons, leaves, flower meristems, sepals, petals, stamen and carpels, but not in roots. {ECO:0000269|PubMed:10457020, ECO:0000269|PubMed:12417699}.
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
PlantRegMapGSBRNA2T00037886001
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_009111513.11e-176PREDICTED: axial regulator YABBY 3 isoform X2
RefseqXP_013693643.11e-176axial regulator YABBY 3 isoform X2
RefseqXP_022569643.11e-176axial regulator YABBY 3 isoform X2
SwissprotQ9XFB11e-139YAB3_ARATH; Axial regulator YABBY 3
TrEMBLA0A078JBF71e-175A0A078JBF7_BRANA; BnaAnng18530D protein
TrEMBLA0A397XXC61e-175A0A397XXC6_BRACM; Uncharacterized protein
TrEMBLM4F8A81e-175M4F8A8_BRARP; Uncharacterized protein
STRINGBra037320.1-P1e-176(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
AT4G00180.11e-121YABBY 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]
  3. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]