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 Carubv10000626m
Common NameCARUB_v10000626mg
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: 552aa    MW: 60432.3 Da    PI: 5.8466
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10000626mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS325.88.5e-1001955452374
             GRAS   2 velLlecAeavss.gdlelaqalLarlsel.aspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkf 93 
                      +e+L+++Ae+++s gd+ laq +Larl+++ +sp g+p++R+a+yf+eAL + l++          +++ ++++ + ++aa+k fse+sP+l+f
  Carubv10000626m 195 TEQLVKAAEVMESgGDTCLAQGILARLNQQlSSPVGKPLERAAFYFKEALGNLLHN---------VSQTLNPYSLIFKIAAYKSFSEISPVLQF 279
                      689********9978999**********998************************9.........55566667789****************** PP

             GRAS  94 shltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegpp.slRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrl 186
                      +++t Nqa+le+++g +r+Hi+Dfdi++G+QW++L+q+L  R++ +p sl+iT+++sp+s+++ el  t+++L++fA+e++++++++vl   +l
  Carubv10000626m 280 ANFTSNQALLESFHGFHRLHIVDFDIGYGGQWASLMQELVLRDNAAPlSLKITVFDSPASHDQLELGFTQDNLKHFASEINISLDIQVL---SL 370
                      *******************************************99998****************************************9...55 PP

             GRAS 187 edl.eleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpres 279
                      + l +++  + +++Ea+aVn++ + ++ l          + vL++vk+lsP+++v++++ +++++ +F ++++++l+ + al++sl+a   ++ 
  Carubv10000626m 371 DLLgSISWPSASEKEAVAVNISAASFSHL----------PLVLRFVKHLSPTIIVCSDRGCERTDLPFPQQLAHSLHSHGALLESLDAV-NANL 453
                      5552334446678**********988887..........67*********************************************887.5677 PP

             GRAS 280 eerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaW 373
                      e+++k+Er+l+++ei+++v+ + +   er    ++W++++ ++GF++v+ s+++++qa++l+++++++g++ve++++sl+l+W++ +Lv vSaW
  Carubv10000626m 454 EAMQKIERFLIQPEIEKLVMDRSRP-MER--PTMTWQAMFLQMGFSAVAHSNFTESQAECLVQRTPVRGFHVEKKHNSLILCWQRTELVGVSAW 544
                      *********************9998.555..559************************************************************ PP

             GRAS 374 r 374
                      r
  Carubv10000626m 545 R 545
                      8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098540.221168525IPR005202Transcription factor GRAS
PfamPF035142.9E-97195545IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007623Biological Processcircadian rhythm
GO:0048768Biological Processroot hair cell tip growth
GO:0051301Biological Processcell division
Sequence ? help Back to Top
Protein Sequence    Length: 552 aa     Download sequence    Send to blast
MLLPFEEFQG KGISYFSSFS SSSFSQPPPS PLLSRRKSRG GQEEVQVPAP EPNSVLDALR  60
SPTSSSTVSS SHGGNSAIGG GCDATTDEQC GQIVLGDWEQ TPHDHEQSIL RLIMGDSTDP  120
SLELNTILQT SPTFPDSDYT PPGFGVVDAG FALDHHSAPP LLINQSQTHY TQNPAAIYYG  180
HPPAKRLNPG PMGITEQLVK AAEVMESGGD TCLAQGILAR LNQQLSSPVG KPLERAAFYF  240
KEALGNLLHN VSQTLNPYSL IFKIAAYKSF SEISPVLQFA NFTSNQALLE SFHGFHRLHI  300
VDFDIGYGGQ WASLMQELVL RDNAAPLSLK ITVFDSPASH DQLELGFTQD NLKHFASEIN  360
ISLDIQVLSL DLLGSISWPS ASEKEAVAVN ISAASFSHLP LVLRFVKHLS PTIIVCSDRG  420
CERTDLPFPQ QLAHSLHSHG ALLESLDAVN ANLEAMQKIE RFLIQPEIEK LVMDRSRPME  480
RPTMTWQAMF LQMGFSAVAH SNFTESQAEC LVQRTPVRGF HVEKKHNSLI LCWQRTELVG  540
VSAWRCRSSS S*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A1e-2820754515375GRAS 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
PlantRegMapCarubv10000626m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF0363030.0AF036303.1 Arabidopsis thaliana scarecrow-like 6 (SCL6) mRNA, partial cds.
GenBankAF4628310.0AF462831.1 Arabidopsis thaliana AT4g00150/F6N15_20 mRNA, complete cds.
GenBankAK1172980.0AK117298.1 Arabidopsis thaliana mRNA, clone: RAFL16-86-D11.
GenBankAL1614710.0AL161471.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 1.
GenBankAY1335370.0AY133537.1 Arabidopsis thaliana At4g00150/F6N15_20 mRNA, complete cds.
GenBankCP0026870.0CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
GenBankF6N150.0AF069299.1 Arabidopsis thaliana BAC F6N15.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006287420.10.0scarecrow-like protein 6
SwissprotO813160.0SCL6_ARATH; Scarecrow-like protein 6
TrEMBLR0H9P40.0R0H9P4_9BRAS; Uncharacterized protein
STRINGXP_006287420.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM85742739
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G00150.10.0GRAS family protein
Publications ? help Back to Top
  1. Bari A,Orazova S,Ivashchenko A
    miR156- and miR171-binding sites in the protein-coding sequences of several plant genes.
    Biomed Res Int, 2013. 2013: p. 307145
    [PMID:23936788]
  2. Xue XY, et al.
    Interaction between two timing microRNAs controls trichome distribution in Arabidopsis.
    PLoS Genet., 2014. 10(4): p. e1004266
    [PMID:24699192]