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 Carubv10008390m
Common NameCARUB_v10008391mg
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: 753aa    MW: 84360.6 Da    PI: 5.4005
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10008390mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS378.48.7e-1163787481373
             GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfs 94 
                      l++lL+ cA+avs +d + a+++L +++e++sp g+  +Rla+yf++ L+arla++++++y al++++ts    ++ l+a++++  v+P+ k +
  Carubv10008390m 378 LRTLLVLCAQAVSVDDRRTANEMLRQIREHSSPLGNGSERLAHYFANSLEARLAGTGTQIYTALSSKKTS---AADMLKAYQTYMLVCPFKKAA 468
                      5789**************************************************************9999...9******************** PP

             GRAS  95 hltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnvlvakrl 186
                       + aN+ +++ +e+++++HiiDf+is+G+QWpaL++ L+ Rp+g+p+lRiTg++ p+ g   +e ++etg+rLa+++++ +vpfe+n+ +a+++
  Carubv10008390m 469 IIFANHSMMRFTENANTIHIIDFGISYGFQWPALIHRLSLRPGGSPKLRITGIELPQRGfrPAEGVQETGHRLARYCQRHNVPFEYNA-IAQKW 561
                      *********************************************************99*****************************.7**** PP

             GRAS 187 edleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklprese 280
                      e++++e+L++++gE ++Vn+ ++ ++llde+v ++s+rd+vLkl+++++P+v++ +    ++n++ F++rf eal +ysa+fd+ ++kl+re+e
  Carubv10008390m 562 ETIKVEDLKLRQGEYVVVNSLFRFKNLLDETVLVNSPRDAVLKLIRKVNPNVFIPAILSGNYNAPFFVTRFREALFHYSAVFDMCDSKLARENE 655
                      ********************************************************************************************** PP

             GRAS 281 erikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaW 373
                       r + E+e+ grei nvvaceg+er+er et+++W++rl +aGF+++pl+++ +++ kl + + +++ + v+++s++l++gWk+r +++ S+W
  Carubv10008390m 656 MRLMFEKEFYGREIINVVACEGTERVERPETYKQWQARLVRAGFRQLPLDKELMQNLKLKIDNGYDKNFDVDQNSNWLLQGWKGRIVYASSVW 748
                      *****************************************************************999************************* PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098566.947352729IPR005202Transcription factor GRAS
PfamPF035143.0E-113378748IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009410Biological Processresponse to xenobiotic stimulus
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0005829Cellular Componentcytosol
Sequence ? help Back to Top
Protein Sequence    Length: 753 aa     Download sequence    Send to blast
MGSYPDGFPG SMDDFTSEFD LPASNNTIGL ANGFYLDEPF LDFVSMDPPP QSYPQNDDKA  60
ATGDLLSSPS DDADFSDSVL KYISQVLMEE DMEEKPCMFH DALALQAAEK SLYEALGEKY  120
PSSVDHPEKL LNDSPDGSFS GGAFSDYAST TTTTSSDSHW SVDGLESRSS WLQTPMPSNF  180
VFQSTSRSNS VTSGGGNSAV FRSGFGDDLV SNMFKDSDLA MQFKRGVEEA SKFLPKSSQL  240
FIDVDSYIPR DSGSKENGSE VFVKTEKKDE TEHHSSAPPP NRLTGKKTHW RDDDEDSVEE  300
RSNKQSAVYV EESELSEMFD KILVCSTGKP VCILDQKFPA KVETTQQVGV QSNGAKIRGK  360
KSNATSQSND AKKETADLRT LLVLCAQAVS VDDRRTANEM LRQIREHSSP LGNGSERLAH  420
YFANSLEARL AGTGTQIYTA LSSKKTSAAD MLKAYQTYML VCPFKKAAII FANHSMMRFT  480
ENANTIHIID FGISYGFQWP ALIHRLSLRP GGSPKLRITG IELPQRGFRP AEGVQETGHR  540
LARYCQRHNV PFEYNAIAQK WETIKVEDLK LRQGEYVVVN SLFRFKNLLD ETVLVNSPRD  600
AVLKLIRKVN PNVFIPAILS GNYNAPFFVT RFREALFHYS AVFDMCDSKL ARENEMRLMF  660
EKEFYGREII NVVACEGTER VERPETYKQW QARLVRAGFR QLPLDKELMQ NLKLKIDNGY  720
DKNFDVDQNS NWLLQGWKGR IVYASSVWVP SS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A3e-5138575226382Protein SCARECROW
5b3h_A3e-5138575225381Protein SCARECROW
5b3h_D3e-5138575225381Protein SCARECROW
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
PlantRegMapCarubv10008390m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0224640.0AC022464.4 Genomic sequence for Arabidopsis thaliana BAC F22G5 from chromosome I, complete sequence.
GenBankAK3167930.0AK316793.1 Arabidopsis thaliana AT1G07530 mRNA, complete cds, clone: RAFL05-11-B19.
GenBankCP0026840.0CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006306847.10.0scarecrow-like protein 14
SwissprotQ9XE580.0SCL14_ARATH; Scarecrow-like protein 14
TrEMBLR0IBA10.0R0IBA1_9BRAS; Uncharacterized protein
STRINGXP_006306846.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM35827189
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G07530.10.0SCARECROW-like 14
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]