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 GSBRNA2T00135717001
Common NameGSBRNA2T00135717001
Organism
Brassica napus
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: 308aa    MW: 32740.9 Da    PI: 8.4028
Description SRS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00135717001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF702207.43.9e-641072603154
               DUF702   3 sgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstkls 92 
                          sgta+CqdCGnqakk+C+++RCRtCCksrgfdC+thvkstWv+aa+rrerq + +a++s+ +++ +   s+++++        +s+t++s
  GSBRNA2T00135717001 107 SGTATCQDCGNQAKKECKQRRCRTCCKSRGFDCSTHVKSTWVSAARRRERQVMPTASTSSGTKKPRIVGSQQQQQA-------TSHTSTS 189
                          7899**********************************************99998887666555433333333222.......2222222 PP

               DUF702  93 saeskkeletss..........lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154
                           ++++++++tss          +P +v+++avf+cvrv++v+dg++e+aYq++v+igGhvfkG+LydqGle 
  GSBRNA2T00135717001 190 -NTPPQSFDTSSsrqdggpreaWPGQVRAAAVFKCVRVTAVEDGDDEYAYQAVVKIGGHVFKGFLYDQGLEP 260
                          .223333333333334444445***********************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF051421.4E-57109259IPR007818Protein of unknown function DUF702
TIGRFAMsTIGR016231.7E-26111153IPR006510Zinc finger, lateral root primordium type 1
TIGRFAMsTIGR016241.5E-30210258IPR006511Lateral Root Primordium type 1, C-terminal
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009733Biological Processresponse to auxin
GO:0048364Biological Processroot development
GO:0042803Molecular Functionprotein homodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 308 aa     Download sequence    Send to blast
MSMVGLRDVY LVAPAYHHHH QNAGVVSGSD QINSNAALGV GMIPLLTAAP PHQQNVEDTD  60
INFLGDSRRW QNNNNSHNQT QYLHFKSAHQ TAVASSSNNS GSGSAASGTA TCQDCGNQAK  120
KECKQRRCRT CCKSRGFDCS THVKSTWVSA ARRRERQVMP TASTSSGTKK PRIVGSQQQQ  180
QATSHTSTSN TPPQSFDTSS SRQDGGPREA WPGQVRAAAV FKCVRVTAVE DGDDEYAYQA  240
VVKIGGHVFK GFLYDQGLEP KEGFPNMSDL HLGGGADNNN GVSVASQPNL DPPPNLYGGG  300
GSGGFYG*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during the early stages of root primordium development and disappears prior to the emergence of lateral roots from the parent root. {ECO:0000269|PubMed:7647564}.
UniprotTISSUE SPECIFICITY: Restricted to lateral root primordia. {ECO:0000269|PubMed:7647564}.
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 influence vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Modulates root growth. {ECO:0000269|PubMed:16740146, ECO:0000269|PubMed:18835563}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00135717001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expression repressed by LDL1 via histone H3 and H4 deacetylation. {ECO:0000269|PubMed:18835563}.
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_009121858.10.0PREDICTED: protein LATERAL ROOT PRIMORDIUM 1
SwissprotQ94CK91e-150LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBLA0A3P6DHC30.0A0A3P6DHC3_BRACM; Uncharacterized protein
STRINGBra008898.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58832646
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G12330.21e-142Lateral root primordium (LRP) protein-related
Publications ? help Back to Top
  1. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  2. 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]