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 Cagra.6011s0009.1.p
Organism
Capsella grandiflora
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: 599aa    MW: 65137.9 Da    PI: 4.6867
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.6011s0009.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS317.23.5e-9724259715374
                 GRAS  15 gdlelaqalLarlselaspdgd..........pmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfs 94 
                          ++  laq +Larl+++ +++++          p++R+a+y+teAL++ l +      +    s ++++n + ++aa+++fse+sP+l+f 
  Cagra.6011s0009.1.p 242 NNPILAQGILARLNHNLNKKKNnddtnntpkpPFHRAASYITEALHSLLED------S----SLSPPQNLIFRIAAYRAFSETSPFLQFV 321
                          55569***********665554467899***9******************9......3....34444569******************** PP

                 GRAS  95 hltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLa.sRp..egppslRiTgvgspesg.skeeleetgerLakfAeelgvpfefnv 180
                          ++taNq+Ile+++g +r+Hi+Dfdi++G+QW++L+q+La +R+   +ppsl+iT+++sp+++ ++ el+ t+e+L++fA e+gv++e ++
  Cagra.6011s0009.1.p 322 NFTANQTILESLQGFDRIHIVDFDIGYGGQWASLIQELAgKRNrsPSPPSLKITAFASPSTVsDEFELRFTEENLRNFAGETGVSLEMEL 411
                          ***************************************7665546689***********9999************************** PP

                 GRAS 181 lvakrledleleeLrvkp...gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh.nsesFlerflealeyysa 266
                          l ++ l + +++ L++ +   +Ea+aVnl ++             + + +L+++k++sP+vvv++++ +d+ n+++F +++++al+yy++
  Cagra.6011s0009.1.p 412 LNVEILLNPTYWPLSLFRsseKEAIAVNLPISSIVSG--------YLPLILRFLKQISPNVVVCSDRSCDRdNDAPFPNGVINALQYYTT 493
                          *99999999999998877777*********9655544........5677***************************************** PP

                 GRAS 267 lfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveee.. 354
                          l++sl+++   ++e+++++Er++++++i+++++++ ++    +e+   Wr+ ++++GF+pv+ls++a++qa++ll++ +++g+++e++  
  Cagra.6011s0009.1.p 494 LLESLDSS---NAEAASSIERFCVQPSIQKLLTNRYRW----MERSPPWRSLFGQCGFSPVTLSQTAETQAEYLLQRNPMRGFHLEKRqs 576
                          *****999...78*************************....9*******************************************6655 PP

                 GRAS 355 .sgslvlgWkdrpLvsvSaWr 374
                           s slvl+W++++Lv+vSaW+
  Cagra.6011s0009.1.p 577 sSSSLVLCWQRKELVAVSAWK 597
                          5889****************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098541.544202574IPR005202Transcription factor GRAS
PfamPF035141.2E-94242597IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0048768Biological Processroot hair cell tip growth
GO:0051301Biological Processcell division
Sequence ? help Back to Top
Protein Sequence    Length: 599 aa     Download sequence    Send to blast
MPLPFEQFQG KGVLGFLDSS SSPGYKIWAN PDKLHGSVVV EDLCFVVNNG GFSEPTSVLD  60
SVRSPSPFVS SSTTTLSSSH GGPSGGGGGP APAFSDADGK CDQMGFEDLD GVLSGGSPGQ  120
EQSILRLIMA GDVVDPGSEF VGFHPGSGSD PILINPNPAF FSDPPSSPPA KRLNSGQPGS  180
QHPQQWVFPF SDPGQESHDP FLTPPKIAGQ DENDQDQSTL IIDQLFSAAA ELIGTTTNGG  240
DNNPILAQGI LARLNHNLNK KKNNDDTNNT PKPPFHRAAS YITEALHSLL EDSSLSPPQN  300
LIFRIAAYRA FSETSPFLQF VNFTANQTIL ESLQGFDRIH IVDFDIGYGG QWASLIQELA  360
GKRNRSPSPP SLKITAFASP STVSDEFELR FTEENLRNFA GETGVSLEME LLNVEILLNP  420
TYWPLSLFRS SEKEAIAVNL PISSIVSGYL PLILRFLKQI SPNVVVCSDR SCDRDNDAPF  480
PNGVINALQY YTTLLESLDS SNAEAASSIE RFCVQPSIQK LLTNRYRWME RSPPWRSLFG  540
QCGFSPVTLS QTAETQAEYL LQRNPMRGFH LEKRQSSSSS LVLCWQRKEL VAVSAWKC*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A2e-2927459739375GRAS family transcription factor containing protein, expressed
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in plant development. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.6011s0009.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL1622950.0AL162295.1 Arabidopsis thaliana DNA chromosome 3, BAC clone T4C21.
GenBankAY0640620.0AY064062.1 Arabidopsis thaliana putative scarecrow protein (At3g60630) mRNA, complete cds.
GenBankAY0963720.0AY096372.1 Arabidopsis thaliana putative scarecrow protein (At3g60630) mRNA, complete cds.
GenBankCP0026860.0CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006290271.10.0scarecrow-like protein 22
SwissprotQ9M0000.0SCL22_ARATH; Scarecrow-like protein 22
TrEMBLR0H1P50.0R0H1P5_9BRAS; Uncharacterized protein
STRINGCagra.6011s0009.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM150661619
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G60630.10.0GRAS family protein
Publications ? help Back to Top
  1. Gustafson AM, et al.
    ASRP: the Arabidopsis Small RNA Project Database.
    Nucleic Acids Res., 2005. 33(Database issue): p. D637-40
    [PMID:15608278]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Xue XY, et al.
    Interaction between two timing microRNAs controls trichome distribution in Arabidopsis.
    PLoS Genet., 2014. 10(4): p. e1004266
    [PMID:24699192]