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 Carubv10016840m
Common NameCARUB_v10016840mg
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: 633aa    MW: 68982.1 Da    PI: 4.6035
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10016840mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS318.41.5e-9727363115374
             GRAS  15 gdlelaqalLarlselaspdgd..........pmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshlta 98 
                      ++  laq +Larl+++ +++++          p++R+a+y+teAL++ l +       + pps ++++n + ++aa+++fse+sP+l+f ++ta
  Carubv10016840m 273 NNPILAQGILARLNHNLNKKKNnddtnntpkpPFHRAASYITEALHSLLEN-------SSPPSLSPPQNLIFRIAAYRAFSETSPFLQFVNFTA 359
                      55569***********665554467899***9******************9.......66888888999************************* PP

             GRAS  99 NqaIleavegeervHiiDfdisqGlQWpaLlqaLa.sRp..egppslRiTgvgspesg.skeeleetgerLakfAeelgvpfefnvlvakrled 188
                      Nq+Ile+++g +r+Hi+Dfdi++G+QW++L+q+La +R+   + psl+iT+++sp+++ ++ el+ t+e+L++fA e+gv++e ++l ++ l +
  Carubv10016840m 360 NQTILESLQGFDRIHIVDFDIGYGGQWATLIQELAgKRNrsPSLPSLKITAFASPSTVsDEFELRFTEENLRNFAGETGVSLEMELLNVEILLN 453
                      ***********************************7666324458***********9999***************************9999999 PP

             GRAS 189 leleeLrvkp...gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh.nsesFlerflealeyysalfdsleaklpre 278
                       +++ L++ +   +Ea+aVnl ++             + + +L+++k++sP+vvv++++ +d+ n+++F +++++al+yy++l++sl+++   +
  Carubv10016840m 454 PTYWPLSLFRsseKEAIAVNLPISSIVSG--------YLPLILRFLKQISPNVVVCSDRSCDRdNDAPFPNGVINALQYYTTLLESLDSS---N 536
                      9999998877777*********9655544........5677**********************************************999...7 PP

             GRAS 279 seerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveee...sgslvlgWkdrpLvs 369
                      +e+++++Er++++++i+++++++ ++    +e+   Wr+ ++++GF+pv+ls++a++qa++ll++ +++g+++e++   s slvl+W++++Lv+
  Carubv10016840m 537 AEAASSIERFCVQPSIQKLLTNRYRW----MERSPPWRSLFGQCGFSPVTLSQTAETQAEYLLQRNPMRGFHLEKRqssSSSLVLCWQRKELVA 626
                      8*************************....9*******************************************66555889************ PP

             GRAS 370 vSaWr 374
                      vSaW+
  Carubv10016840m 627 VSAWK 631
                      ****8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098541.244233608IPR005202Transcription factor GRAS
PfamPF035145.2E-95273631IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048768Biological Processroot hair cell tip growth
GO:0051301Biological Processcell division
Sequence ? help Back to Top
Protein Sequence    Length: 633 aa     Download sequence    Send to blast
MPLPFEQFQG KGVLGFLDSS SSPGYKIWAN PDKLHGSVVV EDLCFVVNNG GFSEPTSVLD  60
SVRSPSPFVS SSTTTLSSSH GGPSGGGGGP APAFSDADGK CDQMGFEDLD GVLSGGSPGQ  120
EQSILRLIMA GDVVDPGSEF VGFHPGSGSD PVIDNPNPLF GYGFPFHDAL EEEKFQVSTN  180
PEILINPNPA FFSDPPSSPP AKRLNSGQPG SQHPQQWVFP FSDPGQESHD PFLTPPKIAG  240
QDENDQDQST LIIDQLFSAA AELIGTTTNG GDNNPILAQG ILARLNHNLN KKKNNDDTNN  300
TPKPPFHRAA SYITEALHSL LENSSPPSLS PPQNLIFRIA AYRAFSETSP FLQFVNFTAN  360
QTILESLQGF DRIHIVDFDI GYGGQWATLI QELAGKRNRS PSLPSLKITA FASPSTVSDE  420
FELRFTEENL RNFAGETGVS LEMELLNVEI LLNPTYWPLS LFRSSEKEAI AVNLPISSIV  480
SGYLPLILRF LKQISPNVVV CSDRSCDRDN DAPFPNGVIN ALQYYTTLLE SLDSSNAEAA  540
SSIERFCVQP SIQKLLTNRY RWMERSPPWR SLFGQCGFSP VTLSQTAETQ AEYLLQRNPM  600
RGFHLEKRQS SSSSLVLCWQ RKELVAVSAW KC*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A4e-3030563139375GRAS 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
PlantRegMapCarubv10016840m
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
STRINGXP_006290271.10.0(Capsella rubella)
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]