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 XP_009103540.1
Organism
Brassica rapa
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 SRS
Protein Properties Length: 335aa    MW: 35322.7 Da    PI: 8.0609
Description SRS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009103540.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF702217.62.8e-671242674154
          DUF702   4 gtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklssaeskk 98 
                     g+ sCqdCGnqakkdCah+RCRtCCksrg++C thvkstWvpaakrrerqqqla++++ +     e+ +kr+re+    +++   t+l+ ++++ 
  XP_009103540.1 124 GGPSCQDCGNQAKKDCAHMRCRTCCKSRGLECPTHVKSTWVPAAKRRERQQQLASSQHPQ----GENVPKRPREHFPVPAKS---TSLVCTHNTL 211
                     6789**************************************************997776....568999999985544443...4444455567 PP

          DUF702  99 eletsslPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154
                      l++ ++P+e+ss+a f+cvrvssvd+ge+e+aY+tavsigGhvfkGiLydqG++e
  XP_009103540.1 212 GLQVGNFPPEISSSATFQCVRVSSVDEGEDEYAYKTAVSIGGHVFKGILYDQGPAE 267
                     999**************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF051427.7E-63125266IPR007818Protein of unknown function DUF702
TIGRFAMsTIGR016233.0E-27127169IPR006510Zinc finger, lateral root primordium type 1
TIGRFAMsTIGR016244.1E-25218265IPR006511Lateral 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: 335 aa     Download sequence    Send to blast
MAGFFSLGNG TGVDGGGSRQ DATTTNTNNN SSPSGNESWL WCRNPNSNAN AGGGDIAPSY  60
KGTLELWQHS NNQQIIFQQQ QQQRLNLYTS AAGLGVGPSN RSLIEASGGE ASGLTMMRSG  120
GGGGGPSCQD CGNQAKKDCA HMRCRTCCKS RGLECPTHVK STWVPAAKRR ERQQQLASSQ  180
HPQGENVPKR PREHFPVPAK STSLVCTHNT LGLQVGNFPP EISSSATFQC VRVSSVDEGE  240
DEYAYKTAVS IGGHVFKGIL YDQGPAERSS SDGGSQPLNL ITAGPSASSS SAKVSCNNGV  300
VGSTSDHYID PASLNYPTSN NSFITGTHFF SNPRS
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009103540.1
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_009103540.10.0PREDICTED: protein SHORT INTERNODES
SwissprotQ9XGX01e-169SHI_ARATH; Protein SHORT INTERNODES
TrEMBLA0A078I7270.0A0A078I727_BRANA; BnaA07g12710D protein
STRINGBo7g065040.10.0(Brassica oleracea)
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
AT5G66350.11e-161Lateral 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]