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 Ciclev10000940m
Common NameCICLE_v10000940mg
Organism
Citrus clementina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family GRAS
Protein Properties Length: 496aa    MW: 54374 Da    PI: 5.5097
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10000940mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS347.32.5e-1061074881374
             GRAS   1 lvelLlecAeavssgdle..laqalLarlselaspdg.dpmqRlaayfteALaarlar.svselykalppsetsekn....sseelaalklfse 86 
                      lv+lL+++Aea++  +++  laq +L rl+el+sp++ ++m+Rlaayft AL+  l +  + +  ++ ++s+ ++++    ++++laa++l+++
  Ciclev10000940m 107 LVHLLMAAAEALTGVNKSreLAQVILVRLKELVSPNDgSNMERLAAYFTDALQGLLEGaGGVHGNNKHNTSNGPHHRddhhHTDVLAAFQLLQD 200
                      68***********85554449***********8887669*****************994222222222222222111346699*********** PP

             GRAS  87 vsPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegpp..slRiTgvgspesg..skeeleetgerLakfAeelgvpf 176
                      +sP++kf+h+taNqaIleav++++rvHi+D+di++G+QW++L+qaL sR++gpp  +lRiT++++  sg  s  +++etg+rL  fA+++g pf
  Ciclev10000940m 201 MSPYVKFGHFTANQAILEAVANDRRVHIVDYDIMEGIQWASLMQALVSRKDGPPapHLRITALSRGGSGrrSISTVQETGRRLVAFAASIGQPF 294
                      **************************************************776555*********888899999******************** PP

             GRAS 177 efnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh.nsesFlerflealeyysalfd 269
                      +f+    ++ e+++ ++L++ +gEal++n++l+l ++  +    ++ + ++L+  k+l+Pk+v++ve+e+   +++ F+ rf+++l++ysa++d
  Ciclev10000940m 295 SFHQCRLDSDETFKASALKLVRGEALIINCMLHLPHFSYR---APDSIASFLSGAKTLNPKLVTLVEEETGPiGDGGFVSRFMDSLHHYSAVYD 385
                      ****9999***************************99844...4444569*******************9888********************* PP

             GRAS 270 sleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveee.sgslvlgW 362
                      slea++p +s++r+ vEr++lg++i+  +a   +     +e++ +W ++l+++GFkpv++s  + +qaklll  ++ dgyrvee  ++ lvlgW
  Ciclev10000940m 386 SLEAGFPMQSRARALVERVFLGPRISGSLARIYRT--CGEEEVYSWGDWLGAVGFKPVNISFANHCQAKLLLGLFN-DGYRVEELaNNRLVLGW 476
                      ******************************99876..778889*********************************.******97588999*** PP

             GRAS 363 kdrpLvsvSaWr 374
                      k+r+L+s+S+W+
  Ciclev10000940m 477 KSRRLLSASVWT 488
                      ***********6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098553.52381468IPR005202Transcription factor GRAS
PfamPF035148.5E-104107488IPR005202Transcription 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: 496 aa     Download sequence    Send to blast
MAMDFDDILH LDFSGYSSTT TTTTTGDDYA CDWNDWSPVV DWEALSGGQD DFHDLIESMM  60
DDSGLNPNAR VANIAHEPCN SVSTETSSSS MAVDEETNGE DFKGLRLVHL LMAAAEALTG  120
VNKSRELAQV ILVRLKELVS PNDGSNMERL AAYFTDALQG LLEGAGGVHG NNKHNTSNGP  180
HHRDDHHHTD VLAAFQLLQD MSPYVKFGHF TANQAILEAV ANDRRVHIVD YDIMEGIQWA  240
SLMQALVSRK DGPPAPHLRI TALSRGGSGR RSISTVQETG RRLVAFAASI GQPFSFHQCR  300
LDSDETFKAS ALKLVRGEAL IINCMLHLPH FSYRAPDSIA SFLSGAKTLN PKLVTLVEEE  360
TGPIGDGGFV SRFMDSLHHY SAVYDSLEAG FPMQSRARAL VERVFLGPRI SGSLARIYRT  420
CGEEEVYSWG DWLGAVGFKP VNISFANHCQ AKLLLGLFND GYRVEELANN RLVLGWKSRR  480
LLSASVWTSS LDSNL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_A2e-5610048811378Protein SCARECROW
5b3h_D2e-5610048811378Protein 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_006434151.20.0nodulation-signaling pathway 2 protein
SwissprotQ5NE240.0NSP2_MEDTR; Nodulation-signaling pathway 2 protein
TrEMBLV4TCL90.0V4TCL9_9ROSI; Uncharacterized protein
STRINGXP_006434151.10.0(Citrus clementina)
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-175GRAS family protein
Publications ? help Back to Top
  1. 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]