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 orange1.1g036669m
Common NameCISIN_1g036669mg
Organism
Citrus sinensis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family bHLH
Protein Properties Length: 317aa    MW: 34130.9 Da    PI: 6.7994
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
orange1.1g036669mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH52.11.2e-16163209455
                        HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                         hn  E+rRR+riN+++  L++l+P++      K +Ka++L +A+eY+k+Lq
  orange1.1g036669m 163 VHNLSEKRRRSRINEKMKALQSLIPNS-----NKTDKASMLDEAIEYLKHLQ 209
                        6*************************7.....5******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.280.103.8E-20156219IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474591.26E-20156220IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088818.07159208IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000831.28E-18162213No hitNo description
PfamPF000104.6E-14163209IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003534.0E-18165214IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007623Biological Processcircadian rhythm
GO:0009409Biological Processresponse to cold
GO:0010114Biological Processresponse to red light
GO:0010154Biological Processfruit development
GO:0010187Biological Processnegative regulation of seed germination
GO:0048440Biological Processcarpel development
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 317 aa     Download sequence    Send to blast
MEQDHVYQYN NNVNIYSTAS SSSVHNTHVP PSSSDEISMF LHQILYRSSS SSSTTITATT  60
SSPNVTHVVP HPVEISAHRL SKSSGISAVD LVNTSVGVGG SLSGNVMVSG ANVSSSSVGL  120
SENENTDEHD CQSEEGIQAS VDEVTAKPVR PRSSSKRSRA AEVHNLSEKR RRSRINEKMK  180
ALQSLIPNSN KTDKASMLDE AIEYLKHLQL QVQVLTMRNG MSLHPMCLPG ILPPIQLPHM  240
RMGFGVGNGS LHMNSTGTLV SQETSTLNVF NLPNQHISSN QLQLPSTSNI INSETEFGLD  300
ASIQANFGPF QHGTASG
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During flower initiation, expressed in the peripheral zone of the shoot apical meristem. Confined to the anlagen of successive flower buds yet to arise. Later expressed in abaxial and adaxial sepal primordia, but not in sepals. When sepals initiate, localized in the region interior to them. Within the gynoecium, detected in the initiating and developing medial regions, and then in the developing septum and stigma. SPT expression also occurs in sub-regions of developing ovules, and in the wall and dehiscence zone of the maturing fruit. As the petals develop, becomes restricted to the adaxial epidermis. In stamen expression increase in the vicinity of the archesporial cells and in cells undergoing divisions to produce sporogenous and secondary parietal cells of the anther locules. Expressed in the tapetum and microspore mother cells until the initiation of meiosis. Also detected in stomium and filaments. {ECO:0000269|PubMed:11245574}.
UniprotTISSUE SPECIFICITY: Expressed in lateral root caps, young leaves, stipules, maturing pith cells of the stem, differentiating vascular cells, shoot apical meristems and flowers. {ECO:0000269|PubMed:11245574}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that plays a role in floral organogenesis. Promotes the growth of carpel margins and of pollen tract tissues derived from them. {ECO:0000269|PubMed:10225997, ECO:0000269|Ref.8}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00035PBMTransfer from AT4G36930Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by the A class gene AP2 in the first whorl and by ARF3/ETT in gynoecium. {ECO:0000269|PubMed:11245574}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY6796159e-65AY679615.1 Fragaria x ananassa basic helix-loop-helix protein mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006425918.10.0transcription factor SPATULA isoform X2
RefseqXP_024036548.10.0transcription factor SPATULA isoform X3
SwissprotQ9FUA43e-49SPT_ARATH; Transcription factor SPATULA
TrEMBLA0A067GHM30.0A0A067GHM3_CITSI; Uncharacterized protein (Fragment)
STRINGXP_006425918.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM41992754
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G36930.17e-50bHLH family protein
Publications ? help Back to Top
  1. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]
  2. Pabón-Mora N,Wong GK,Ambrose BA
    Evolution of fruit development genes in flowering plants.
    Front Plant Sci, 2014. 5: p. 300
    [PMID:25018763]
  3. Moubayidin L,Ostergaard L
    Dynamic control of auxin distribution imposes a bilateral-to-radial symmetry switch during gynoecium development.
    Curr. Biol., 2014. 24(22): p. 2743-8
    [PMID:25455035]
  4. Pfannebecker KC,Lange M,Rupp O,Becker A
    Seed Plant-Specific Gene Lineages Involved in Carpel Development.
    Mol. Biol. Evol., 2017. 34(4): p. 925-942
    [PMID:28087776]
  5. Zumajo-Cardona C,Ambrose BA,Pabón-Mora N
    Evolution of the SPATULA/ALCATRAZ gene lineage and expression analyses in the basal eudicot, Bocconia frutescens L. (Papaveraceae).
    Evodevo, 2017. 8: p. 5
    [PMID:28331573]
  6. Reyes-Olalde JI, et al.
    The bHLH transcription factor SPATULA enables cytokinin signaling, and both activate auxin biosynthesis and transport genes at the medial domain of the gynoecium.
    PLoS Genet., 2017. 13(4): p. e1006726
    [PMID:28388635]
  7. Wu M, et al.
    SPATULA regulates floral transition and photomorphogenesis in a PHYTOCHROME B-dependent manner in Arabidopsis.
    Biochem. Biophys. Res. Commun., 2018. 503(4): p. 2380-2385
    [PMID:29966653]