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 RrC1266_p6
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: 200aa    MW: 22483.4 Da    PI: 6.3857
Description YABBY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC1266_p6genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1YABBY103.83.6e-32698289
       YABBY  2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakas....qllaaeshldeslkeelle.elkveeenlksnveke 89
                ++f+ ++q+C+vqC+fC+til+v+vP tsl++vvtvrCGhCtsllsvnl+kas    +ll++ shlde++k+e+++ +++veee++k+n+ +e
  RrC1266_p6  6 QLFDLPGQICHVQCGFCTTILLVNVPLTSLSMVVTVRCGHCTSLLSVNLMKASyiplHLLTSLSHLDEAGKQEVAAtTDGVEEETWKVNQDQE 98
                78999**********************************************9989999*************9976516789999999998765 PP
2YABBY100.14.8e-3197151115169
       YABBY 115 virPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkihfg 169
                     Pekrqr+Psayn+fikeei+r+ka+nP+++h+eafs+aaknWa fP++ ++
  RrC1266_p6  97 QETTPEKRQRAPSAYNCFIKEEIKRLKAQNPSMTHKEAFSLAAKNWANFPPVQNK 151
                 4568***********************************************9887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046905.4E-5111150IPR006780YABBY protein
Gene3DG3DSA:1.10.30.101.3E-698148IPR009071High mobility group box domain
SuperFamilySSF470954.06E-998148IPR009071High mobility group box domain
CDDcd000844.68E-5106147No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0048481Biological Processplant ovule development
GO:0005634Cellular Componentnucleus
Sequence ? help Back to Top
Protein Sequence    Length: 200 aa     Download sequence    Send to blast
MTTLNQLFDL PGQICHVQCG FCTTILLVNV PLTSLSMVVT VRCGHCTSLL SVNLMKASYI  60
PLHLLTSLSH LDEAGKQEVA ATTDGVEEET WKVNQDQETT PEKRQRAPSA YNCFIKEEIK  120
RLKAQNPSMT HKEAFSLAAK NWANFPPVQN KRAASDQFFC EDDNNALLSC NALEDHEESN  180
NGFRERKAQR HSIWGKSPFE
Functional Description ? help Back to Top
Source Description
UniProtEssential for the formation and the abaxial-adaxial asymmetric growth of the ovule outer integument. {ECO:0000269|PubMed:10601041, ECO:0000269|PubMed:12183380, ECO:0000269|PubMed:9093862, ECO:0000269|PubMed:9118807}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Autoinduction down-regulated by SUP in adaxial region of the ovule outer integument. Negatively and spatially regulated by HLL, ANT, BELL1, NZZ/SPL and SUP. {ECO:0000269|PubMed:10601041, ECO:0000269|PubMed:12183380, ECO:0000269|PubMed:12183381}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB4934751e-104AB493475.1 Arabidopsis thaliana At1g23420 mRNA for hypothetical protein, partial cds, clone: RAAt1g23420.
GenBankAF1950471e-104AF195047.1 Arabidopsis thaliana INNER NO OUTER (INO) mRNA, complete cds.
GenBankBT0264101e-104BT026410.1 Arabidopsis thaliana At1g23420 mRNA, complete cds.
GenBankDQ4462811e-104DQ446281.1 Arabidopsis thaliana clone pENTR221-At1g23420 inner no outer protein (At1g23420) mRNA, complete cds.
GenBankDQ6528551e-104DQ652855.1 Arabidopsis thaliana clone 0000017089_0000011971 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009115528.11e-133PREDICTED: axial regulator YABBY 4
RefseqXP_013662883.11e-133axial regulator YABBY 4
SwissprotQ9LDT31e-118YAB4_ARATH; Axial regulator YABBY 4
TrEMBLA0A3P5YGQ61e-132A0A3P5YGQ6_BRACM; Uncharacterized protein
STRINGBra024599.1-P1e-132(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM80442740
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G23420.11e-120YABBY family protein
Publications ? help Back to Top
  1. Lora J,Hormaza JI,Herrero M
    Transition from two to one integument in Prunus species: expression pattern of INNER NO OUTER (INO), ABERRANT TESTA SHAPE (ATS) and ETTIN (ETT).
    New Phytol., 2015. 208(2): p. 584-95
    [PMID:25991552]
  2. Skinner DJ,Brown RH,Kuzoff RK,Gasser CS
    Conservation of the role of INNER NO OUTER in development of unitegmic ovules of the Solanaceae despite a divergence in protein function.
    BMC Plant Biol., 2016. 16(1): p. 143
    [PMID:27350128]
  3. Simon MK,Skinner DJ,Gallagher TL,Gasser CS
    Integument Development in Arabidopsis Depends on Interaction of YABBY Protein INNER NO OUTER with Coactivators and Corepressors.
    Genetics, 2017. 207(4): p. 1489-1500
    [PMID:28971961]