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 Ciclev10025993m
Common NameCICLE_v10025993mg
Organism
Citrus clementina
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 SRS
Protein Properties Length: 345aa    MW: 36940.9 Da    PI: 7.2857
Description SRS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10025993mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF7022174.3e-671162624154
           DUF702   4 gtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklssaesk 97 
                      g++sCqdCGnqakkdCah+RCRtCCksrgfdC+thvkstWv+a+krre+qqql+ ++  +  + + +++kr+re+ +  +s+l++++l+ + s 
  Ciclev10025993m 116 GGMSCQDCGNQAKKDCAHMRCRTCCKSRGFDCQTHVKSTWVAASKRREKQQQLTLQQ--QRLQLRGETNKRPREE-NPISSSLACSRLPANASG 206
                      789**********************************************99998764..4456788999999997.667889999999998877 PP

           DUF702  98 keletsslPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154
                       e+ +++lP evs++avfrcv+vs++dd+e+++aYqt+v+igGh+fkGiLydqG+e+
  Ciclev10025993m 207 FEV-AENLPGEVSTQAVFRCVKVSGIDDSEDQFAYQTSVNIGGHLFKGILYDQGPES 262
                      555.556************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF051423.5E-63117261IPR007818Protein of unknown function DUF702
TIGRFAMsTIGR016231.3E-26119161IPR006510Zinc finger, lateral root primordium type 1
TIGRFAMsTIGR016241.3E-26213260IPR006511Lateral Root Primordium type 1, C-terminal
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009938Biological Processnegative regulation of gibberellic acid mediated signaling pathway
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 345 aa     Download sequence    Send to blast
MAGFFSLGRV SSSSNNNQED QQHNPANPIT PENWFWYKNE DISYKQGASF ELWQQQAELL  60
LQQRQQQQQD LYSSSAAAGL GMGPISRSAI NVVGGIDNSS SRSAFMMVRS SSGIGGGMSC  120
QDCGNQAKKD CAHMRCRTCC KSRGFDCQTH VKSTWVAASK RREKQQQLTL QQQRLQLRGE  180
TNKRPREENP ISSSLACSRL PANASGFEVA ENLPGEVSTQ AVFRCVKVSG IDDSEDQFAY  240
QTSVNIGGHL FKGILYDQGP ESTYTTGESS SGGGIQLQPL NLVTAGAGPD PVNTTATPVS  300
PAAAAVTASS STAAFLDPSS LYPTPFTTFM AAAGTQFFPS PRSS*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In germinating seeds, first detected at about 48 h after imbibition. In young seedlings grown in continuous light, present in the root/shoot transition zone, in the apex, and in the apical region of the cotyledons. Later observed in lateral root primordia and in emerging lateral roots, particularly in the root tips, as well as in the shoot apex and in the new leaves, especially in the apical and lateral hydathodes. In adult plants, accumulates in lateral root tips, lateral root primordia, and axillary shoot primordia. In flowers, expressed in the style and stigmatic surface of the pistil and in the receptacle (base) of the flower throughout the development of the pistil until anthesis and later in the silique. Fades out after fertilization. {ECO:0000269|PubMed:11706176, ECO:0000269|PubMed:16740146}.
UniprotTISSUE SPECIFICITY: Expressed in young organs such as shoot apices and root tips. Present in roots, stems, flowers, leaves, hydathodes and siliques. {ECO:0000269|PubMed:10368174, ECO:0000269|PubMed:11706176}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds DNA on 5'-ACTCTAC-3' and promotes auxin homeostasis-regulating gene expression (e.g. YUC genes), as well as genes affecting stamen development, cell expansion and timing of flowering. Synergistically with other SHI-related proteins, regulates gynoecium, stamen and leaf development in a dose-dependent manner, controlling apical-basal patterning. Promotes style and stigma formation, and influences vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Suppressor of the gibberellin (GA) signal transduction. {ECO:0000269|PubMed:10368174, ECO:0000269|PubMed:11706176, ECO:0000269|PubMed:16740146}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006425568.10.0protein SHI RELATED SEQUENCE 1
SwissprotQ9XGX02e-93SHI_ARATH; Protein SHORT INTERNODES
TrEMBLV4RVK40.0V4RVK4_9ROSI; Uncharacterized protein
STRINGXP_006425568.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM34192864
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G66350.12e-70Lateral root primordium (LRP) protein-related
Publications ? help Back to Top
  1. Islam MA, et al.
    Overexpression of the AtSHI gene in poinsettia, Euphorbia pulcherrima, results in compact plants.
    PLoS ONE, 2013. 8(1): p. e53377
    [PMID:23308204]
  2. Pfannebecker KC,Lange M,Rupp O,Becker A
    An Evolutionary Framework for Carpel Developmental Control Genes.
    Mol. Biol. Evol., 2017. 34(2): p. 330-348
    [PMID:28049761]
  3. Estornell LH,Landberg K,Cierlik I,Sundberg E
    SHI/STY Genes Affect Pre- and Post-meiotic Anther Processes in Auxin Sensing Domains in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 150
    [PMID:29491878]