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 Gorai.010G048800.1
Common NameB456_010G048800, LOC105771454
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family GRAS
Protein Properties Length: 485aa    MW: 53461 Da    PI: 5.8953
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.010G048800.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS345.11.2e-105984781374
                GRAS   1 lvelLlecAeavssgdle..laqalLarlsel.aspdgdpmqRlaayfteALaarlarsvselykal....ppsetseknsseelaalklf 84 
                         l++lL+++Aea++ ++++  la+ +L rl+el + +dg++m+RlaayfteAL+  l +s+ +  k l    p  + +e+++++ laa++l+
  Gorai.010G048800.1  98 LIHLLMAAAEALAGDNKSreLARVILVRLKELvSHNDGTNMERLAAYFTEALHGLLEGSGGGHGKHLitngPHHHGDEHHHTDMLAAFQLL 188
                         689*********998776569***********444566*******************987666665521114444455559********** PP

                GRAS  85 sevsPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpeg..ppslRiTgvgspesg..skeeleetgerLakfAee 171
                         +++sP++kf+h+taNqaIlea+ +++r+Hi+D+d+++G+QW++L+qaL sR++g  +p+lRiT++++  sg  s  +++etg+rL  fA++
  Gorai.010G048800.1 189 QDMSPYVKFGHFTANQAILEATTHDRRIHIVDYDVMEGIQWASLMQALVSRKDGpqAPHLRITAISRTGSGrrSIGTIQETGRRLVAFAAS 279
                         ****************************************************662368*********888899999*************** PP

                GRAS 172 lgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh.nsesFlerfleal 261
                         +g pf+f+    ++ e++++++L++ +gEal++n++l+l ++  +  ++     ++L+  k+l+P++v++ve+e+   +++ F+ +f+++l
  Gorai.010G048800.1 280 IGQPFSFHQCRLDSDETFRPSALKLVRGEALIINCMLHLPHFSYRAPDSV---ASFLSGAKTLNPRLVTLVEEEVGPiGDGGFVGQFMDSL 367
                         *********9999****************************985555555...59*******************9988************* PP

                GRAS 262 eyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrve 352
                         ++ysa++dslea++p ++++r+ vEr++lg++i   +a   +     +e+   W+++l ++GFkpv++s  + +qaklll  ++ dgyrve
  Gorai.010G048800.1 368 HHYSAVYDSLEAGFPMQNRARALVERVFLGPRIAGSLARIYRT--GGEEESCGWSKWLATMGFKPVNISFANHCQAKLLLGLFN-DGYRVE 455
                         **************************************98876..8888899********************************.****** PP

                GRAS 353 ee.sgslvlgWkdrpLvsvSaWr 374
                         e  ++ lvlgWk+r+L+s+S W+
  Gorai.010G048800.1 456 ELaNNRLVLGWKSRRLLSASIWT 478
                         97588999**************6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098551.77672458IPR005202Transcription factor GRAS
PfamPF035144.1E-10398478IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
Sequence ? help Back to Top
Protein Sequence    Length: 485 aa     Download sequence    Send to blast
MATDNAFEVD FYSNSTTTSI TDDSPACTWN HWGSPVVDWD SFSSDPDDFQ DLIESMMDDG  60
TGFELARVAH ETSNSVSTDT MVVDEETNGD EDSKGLRLIH LLMAAAEALA GDNKSRELAR  120
VILVRLKELV SHNDGTNMER LAAYFTEALH GLLEGSGGGH GKHLITNGPH HHGDEHHHTD  180
MLAAFQLLQD MSPYVKFGHF TANQAILEAT THDRRIHIVD YDVMEGIQWA SLMQALVSRK  240
DGPQAPHLRI TAISRTGSGR RSIGTIQETG RRLVAFAASI GQPFSFHQCR LDSDETFRPS  300
ALKLVRGEAL IINCMLHLPH FSYRAPDSVA SFLSGAKTLN PRLVTLVEEE VGPIGDGGFV  360
GQFMDSLHHY SAVYDSLEAG FPMQNRARAL VERVFLGPRI AGSLARIYRT GGEEESCGWS  420
KWLATMGFKP VNISFANHCQ AKLLLGLFND GYRVEELANN RLVLGWKSRR LLSASIWTSP  480
HSDL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A3e-57844785379Protein SCARECROW
5b3h_A3e-57844784378Protein SCARECROW
5b3h_D3e-57844784378Protein SCARECROW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, shoots and leaves. {ECO:0000269|PubMed:15961668}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator essential for Nod-factor-induced gene expression. Acts downstream of calcium spiking and DMI3, a calcium/calmodulin-dependent protein kinase (CCaMK). {ECO:0000269|PubMed:15961668}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced 24 hours after treatment with Nod factor or Sinorhizobium meliloti. {ECO:0000269|PubMed:15961668}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012448378.10.0PREDICTED: nodulation-signaling pathway 2 protein-like
SwissprotQ5NE240.0NSP2_MEDTR; Nodulation-signaling pathway 2 protein
TrEMBLA0A0D2V5T60.0A0A0D2V5T6_GOSRA; Uncharacterized protein
STRINGGorai.010G048800.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM99142736
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G08250.11e-168GRAS family protein
Publications ? help Back to Top
  1. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  2. Tang H, et al.
    An improved genome release (version Mt4.0) for the model legume Medicago truncatula.
    BMC Genomics, 2014. 15: p. 312
    [PMID:24767513]