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 Carubv10011270m
Common NameCARUB_v10011270mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family GRAS
Protein Properties Length: 448aa    MW: 50243.9 Da    PI: 6.9921
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10011270mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS419.72.5e-128434471374
             GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaal............. 81 
                      l++lL+++A++vs++++++a++lL+ ls ++sp+gd++qRla+ ft+AL+ r++r ++e   ++++ +t+e+++s++ +++             
  Carubv10011270m  43 LRRLLFTAADFVSQSNFTAARNLLSILSLNSSPYGDSTQRLAHLFTKALSLRINRLQQEQDPTVATCTTNEMTMSTNSTVFtssvckeqflfrt 136
                      689****************************************************7777777777777777775555555567789999***** PP

             GRAS  82 ............klfsevsPilkfshltaNqaIleavege..ervHiiDfdisqGlQWpaLlqaLasRp....egppslRiTgvgspesgskee 157
                                    +++++P+++f+hltaNqaIl+a+e++   ++Hi+D+disqGlQWp+L+qaLa+R+    ++ppslRiTg+g+    + + 
  Carubv10011270m 137 knnnsdfescyyLWLNQLTPFIRFGHLTANQAILDATETNdnGALHILDLDISQGLQWPPLMQALAERSsspnSPPPSLRITGCGR----DVTG 226
                      ***99999876444************************9977899***********************988877799*********....**** PP

             GRAS 158 leetgerLakfAeelgvpfefnvl..vakrl..edleleeLrvkp..gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqe 245
                      l++tg+rL++fA++lg++f+f+ l  v ++l    l+++ L+++   gE++aVn+v+ l+++++++++l     ++L ++ksl+P++v+++e+e
  Carubv10011270m 227 LNRTGDRLTRFANSLGLQFQFHKLviVDEDLpgLLLQIRLLALSAvqGETIAVNCVHFLYKFFNDDADLIG---HFLTVIKSLNPRIVTMAERE 317
                      **********************9954223431134566666666566******************999999...******************** PP

             GRAS 246 adhnsesFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqakl 339
                      a+h+++sFl rf+eal++y+a+fdslea+lp++s+er ++E++++g+ei++vva+e +er++rh+++e W e+++++GF +vp++++a +qakl
  Carubv10011270m 318 ANHGDHSFLIRFSEALDHYVAIFDSLEATLPPNSRERLTLEQRWFGKEIMDVVAAEATERKQRHRRFEIWGEMMKRFGFVNVPIGSFALSQAKL 411
                      ********************************************************************************************** PP

             GRAS 340 llrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374
                      llr ++ s+gy+++  ++sl+lgW++r L+svS+W+
  Carubv10011270m 412 LLRLHYpSEGYNLQFLNDSLFLGWQNRLLFSVSSWK 447
                      ***********************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098558.22717426IPR005202Transcription factor GRAS
PfamPF035148.5E-12643447IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010223Biological Processsecondary shoot formation
Sequence ? help Back to Top
Protein Sequence    Length: 448 aa     Download sequence    Send to blast
MLTSFKSSSS SSEDATTETP PPPFCQLASS SSSSAATSAS HHLRRLLFTA ADFVSQSNFT  60
AARNLLSILS LNSSPYGDST QRLAHLFTKA LSLRINRLQQ EQDPTVATCT TNEMTMSTNS  120
TVFTSSVCKE QFLFRTKNNN SDFESCYYLW LNQLTPFIRF GHLTANQAIL DATETNDNGA  180
LHILDLDISQ GLQWPPLMQA LAERSSSPNS PPPSLRITGC GRDVTGLNRT GDRLTRFANS  240
LGLQFQFHKL VIVDEDLPGL LLQIRLLALS AVQGETIAVN CVHFLYKFFN DDADLIGHFL  300
TVIKSLNPRI VTMAEREANH GDHSFLIRFS EALDHYVAIF DSLEATLPPN SRERLTLEQR  360
WFGKEIMDVV AAEATERKQR HRRFEIWGEM MKRFGFVNVP IGSFALSQAK LLLRLHYPSE  420
GYNLQFLNDS LFLGWQNRLL FSVSSWK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A4e-625144627378Protein SCARECROW
5b3h_A3e-625144626377Protein SCARECROW
5b3h_D3e-625144626377Protein SCARECROW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor required for axillary (lateral) shoot meristem formation during vegetative development. Seems to act upstream of REVOLUTA. {ECO:0000269|PubMed:12730136}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10011270m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ3033490.0AJ303349.1 Capsella rubella ORF1, ORF2, ORF3, ORF4, ORF5 and ORF6 (partial).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006304499.10.0scarecrow-like protein 18 isoform X2
SwissprotQ9ZWC50.0SCL18_ARATH; Scarecrow-like protein 18
TrEMBLQ9ARF60.0Q9ARF6_9BRAS; Uncharacterized protein
STRINGXP_006304499.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM113292733
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G55580.10.0GRAS family protein
Publications ? help Back to Top
  1. Rossberg M, et al.
    Comparative sequence analysis reveals extensive microcolinearity in the lateral suppressor regions of the tomato, Arabidopsis, and Capsella genomes.
    Plant Cell, 2001. 13(4): p. 979-88
    [PMID:11283350]
  2. Zhang B, et al.
    Novel function of a putative MOC1 ortholog associated with spikelet number per spike in common wheat.
    Sci Rep, 2015. 5: p. 12211
    [PMID:26197925]