PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Solyc05g005240.1.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family YABBY
Protein Properties Length: 193aa    MW: 21514.5 Da    PI: 8.157
Description YABBY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc05g005240.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1YABBY179.12.5e-5571582165
               YABBY   2 dvfssseqvCyvqCnfCntilavsvPstslf.kvvtvrCGhCtsllsvnlakas.qllaaeshldeslkeelleelkveeenlksnvekee 90 
                         ++f+  + +CyvqC++C+til+vsvP +sl  kvvtvrCGhCt+lls+nl k s +l a+ ++   + +++ ++++++++ n k  ++   
  Solyc05g005240.1.1   7 HLFELQDTICYVQCGYCTTILLVSVPCSSLCnKVVTVRCGHCTTLLSLNLIKPSlHLFASFDQ---THQPPEVDKDETDDANKKNSNS--- 91 
                         789999***********************973699**************98876266666665...4445444444333332222111... PP

               YABBY  91 sastsvsseklsenedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPk 165
                               +    ++ e++ +p  + v++PPekrqr+Psayn+fikeei+r+k+  P+++h++afs+aaknWahfP+
  Solyc05g005240.1.1  92 -----DEE---DQLENNVLPLNQVVNKPPEKRQRAPSAYNCFIKEEIKRLKTLYPNMTHKQAFSTAAKNWAHFPP 158
                         .....111...222334455555689***********************************************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046904.6E-5512159IPR006780YABBY protein
SuperFamilySSF470951.96E-8106160IPR009071High mobility group box domain
Gene3DG3DSA:1.10.30.105.3E-5109160IPR009071High mobility group box domain
CDDcd000840.00307117160No 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: 193 aa     Download sequence    Send to blast
MSTLNNHLFE LQDTICYVQC GYCTTILLVS VPCSSLCNKV VTVRCGHCTT LLSLNLIKPS  60
LHLFASFDQT HQPPEVDKDE TDDANKKNSN SDEEDQLENN VLPLNQVVNK PPEKRQRAPS  120
AYNCFIKEEI KRLKTLYPNM THKQAFSTAA KNWAHFPPSQ HRGGCSLGER KMAKVSAARN  180
SMVPRDSNGL IP*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: First detected in a group of around 15 epidermal cells on the abaxial half of each ovule primordium (chalaza, outer integument initiation sites). Later present in the outer cell layer of the outer integument on the abaxial side of the ovule primordium. Confined to the chalazal end of the integument and disappears after anthesis. Also present in embryos at the globular stage. {ECO:0000269|PubMed:10601041, ECO:0000269|PubMed:12183380, ECO:0000269|PubMed:12183381}.
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc05g005240.1.1
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
GenBankAC1887813e-68Lycopersicon esculentum cv. Heinz 1706, chromosome 5 BAC clone C05SLm0005B15 complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010321151.21e-143axial regulator YABBY 4
SwissprotQ9LDT31e-55YAB4_ARATH; Axial regulator YABBY 4
TrEMBLA0A3G4YK591e-142A0A3G4YK59_SOLCE; INNER NO OUTER
TrEMBLA0A3G4YK721e-142A0A3G4YK72_SOLPI; INNER NO OUTER
TrEMBLA0A3Q7G9291e-142A0A3Q7G929_SOLLC; Uncharacterized protein
STRINGSolyc05g005240.1.11e-143(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA38124163
Representative plantOGRP9612712
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G23420.15e-58YABBY family protein
Publications ? help Back to Top
  1. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  2. 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]
  3. 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]
  4. 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]