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 Csa08g001170.1
Organism
Camelina sativa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family GRAS
Protein Properties Length: 553aa    MW: 60747.5 Da    PI: 5.7323
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa08g001170.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS37.53.4e-12158219260
            GRAS   2 velLlecAeavss...gdlelaqalLarlsel.aspdgdpmqRlaayfteALaarlarsvsel 60 
                     +e+L+++Ae++++   gd+  aq +Larl+++ +sp g+p++R+a+yf+eAL++ l++ vs++
  Csa08g001170.1 158 TEQLVKAAEVIDQsggGDTCIAQGILARLNQQlSSPVGKPLERAAFYFKEALNNLLHN-VSQT 219
                     689*********98888*************998***********************99.3333 PP
2GRAS301.32.4e-9221854822374
            GRAS  22 alLarlsel.aspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshltaNqaIleavegeervHii 115
                     ++L+  s +  s  g+p++R+a+yf+eAL++ l++          +++ ++++ + ++aa+k fse+sP+l+f+++t Nqa+le+++g +r+Hi+
  Csa08g001170.1 218 QTLNPYSLIfXSRVGKPLERAAFYFKEALNNLLHN---------VSQTLNPYSLIFKIAAYKSFSEISPVLQFANFTSNQALLESFQGFHRLHIV 303
                     55666666667999********************9.........55566667789**************************************** PP

            GRAS 116 DfdisqGlQWpaLlqaLasRpegpp.slRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledleleeLrvkpgEalaVnlvlq 209
                     Dfdi++G+QW++L+q+L  R++ +p sl+iT+++sp+++++ el  t+++L++fA+e++++++++vl  + l ++  +  + +++Ea+aVn++ +
  Csa08g001170.1 304 DFDIGYGGQWASLMQELVLRDNAAPlSLKITVFASPANHDQLELGFTQDNLKHFASEINISLDIQVLSLDLLGSI-SWPNESEEKEAVAVNISPA 397
                     *********************99998****************************************855555555.56667888*********98 PP

            GRAS 210 lhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegae 304
                      ++ l          + vL++vk+lsP+++v++++ +++++ +F ++++++l+ ++al++sl+a   ++ ++++k+Er+l+++ei+++v+ + + 
  Csa08g001170.1 398 SFSQL----------PLVLRFVKHLSPTIIVCSDRGCERTDLPFPQQLAQSLHSHAALLESLDAV-NANLDAMQKIERFLIQPEIEKLVMDRSRP 481
                     87776..........67*********************************************887.56779********************9998 PP

            GRAS 305 rrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                         ++ +++W++ + ++GF+pv+ s+++++qa++l+++++++g++ve++++sl+l+W++ +Lv vSaWr
  Csa08g001170.1 482 ---IERPMMTWQSVFLQMGFSPVTHSNFTESQAECLVQRTPVRGFHVEKKHNSLLLCWQRTELVGVSAWR 548
                     ...55677*************************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098538.441134528IPR005202Transcription factor GRAS
PfamPF035148.3E-90218548IPR005202Transcription factor GRAS
Sequence ? help Back to Top
Protein Sequence    Length: 553 aa     Download sequence    Send to blast
MLSKDLFEVP TAEPNSVLDA LISPTSSSTV SSSHGGNSAV GGGGVATTDE HCGQVVLGDW  60
EQVPHDHEQS ILRLIMGDST DPSLELNSIL QTSPTFHDSD YASPGFGVVD TTGFALDHHS  120
VPGLLINQSQ THYAQNPAAI YYGHPPAKRL NPGPIGITEQ LVKAAEVIDQ SGGGDTCIAQ  180
GILARLNQQL SSPVGKPLER AAFYFKEALN NLLHNVSQTL NPYSLIFXSR VGKPLERAAF  240
YFKEALNNLL HNVSQTLNPY SLIFKIAAYK SFSEISPVLQ FANFTSNQAL LESFQGFHRL  300
HIVDFDIGYG GQWASLMQEL VLRDNAAPLS LKITVFASPA NHDQLELGFT QDNLKHFASE  360
INISLDIQVL SLDLLGSISW PNESEEKEAV AVNISPASFS QLPLVLRFVK HLSPTIIVCS  420
DRGCERTDLP FPQQLAQSLH SHAALLESLD AVNANLDAMQ KIERFLIQPE IEKLVMDRSR  480
PIERPMMTWQ SVFLQMGFSP VTHSNFTESQ AECLVQRTPV RGFHVEKKHN SLLLCWQRTE  540
LVGVSAWRCR SS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A4e-3023154836375GRAS 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
PlantRegMapCsa08g001170.1
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_010419547.10.0PREDICTED: scarecrow-like protein 6
SwissprotO813160.0SCL6_ARATH; Scarecrow-like protein 6
TrEMBLR0H9P40.0R0H9P4_9BRAS; Uncharacterized protein
STRINGXP_010419546.10.0(Camelina sativa)
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]