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 orange1.1g008559m
Common NameCISIN_1g008559mg
Organism
Citrus sinensis
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: 562aa    MW: 62182.1 Da    PI: 5.8613
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
orange1.1g008559mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS255.91.5e-781715532374
               GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlar..svselykalppsetseknsseelaalklfsevsPil 91 
                        ++lL  cA a+++g+l+++q+lL  l+elasp+gd+++Rlaa+ ++AL ++l++  s+s++  +  p + s+++     ++l  f++ sP++
  orange1.1g008559m 171 EQLLNPCAAAITAGNLTRVQHLLYVLHELASPTGDANHRLAAHGLRALTHHLSSlsSSSTTTTSTGPLTFSSTEPRFFQKSLLNFYDKSPWF 262
                        689**************************************************9522233333334444444444444444444******** PP

               GRAS  92 kfshltaNqaIleavege.....ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg.........skeeleetgerLakf 168
                         f + +aN+ Il+ ++++     + +Hi+D+++s+G+QWp+Ll+aL+ R+ ++pp +R+T +++ +++               ++  +L  f
  orange1.1g008559m 263 AFPNNIANSSILQILAQDrhnqvQNLHILDIGVSHGVQWPTLLEALTRRSgGPPPLVRLTIIAPTAENdqnaetpfsVGPPGDNYSLQLLGF 354
                        ***************99878666777************************55666*******9977767777777666667789999***** PP

               GRAS 169 AeelgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh...nsesFlerf 257
                        A+++++++++n l ++ l+dl+ ++ +++p+E+l+V+ +++lh+l    +s+++er+e+L++++sl+Pk v+++e+++d+   n ++F+++f
  orange1.1g008559m 355 AKSMNINLQINRLESHPLQDLSSQMVSTSPEETLIVCTQFRLHHLN---HSTPDERTEFLRVLRSLEPKGVILSENNMDCscgNCGDFATGF 443
                        *************999*****************************8...77778889*******************9776547888****** PP

               GRAS 258 lealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdg 348
                        ++ +ey + ++ds++a +    + r + Er++++ e+ ++++++ ++    +e + kW +r++ +GF    ++e+a +  ++llrk++ s++
  orange1.1g008559m 444 ARRVEYLWRFLDSTSAAF----KGRESEERRVMEGEAAKALTNRAEM----NEGKDKWCDRMRGVGFVGDVFGEDAIDGGRALLRKYDnSWE 527
                        **************7775....5566666666666677777766555....9************************************99** PP

               GRAS 349 yrveeesgslvlgWkdrpLvsvSaWr 374
                         rvee++g++ l Wk++p+ ++S W+
  orange1.1g008559m 528 TRVEERDGCIELWWKGQPVSFCSLWK 553
                        *************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098538.775144532IPR005202Transcription factor GRAS
PfamPF035145.0E-76171553IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0042446Biological Processhormone biosynthetic process
GO:2000032Biological Processregulation of secondary shoot formation
Sequence ? help Back to Top
Protein Sequence    Length: 562 aa     Download sequence    Send to blast
MTIIEEPEPN PTADHILDWL EESVSFLPSF LDDPYNANGI DDYQWWNQGQ DMAPEQLIGN  60
TGASSAAAPV NNTEATVNVS TISVRPTDSV VPGPPAPADS SKKRRNADDP RTRSSQSHHQ  120
RKNQGRRISE TEEGNEEGVI VKRSVGNKKN TNKSTGNNGN NGNSKEGRWA EQLLNPCAAA  180
ITAGNLTRVQ HLLYVLHELA SPTGDANHRL AAHGLRALTH HLSSLSSSST TTTSTGPLTF  240
SSTEPRFFQK SLLNFYDKSP WFAFPNNIAN SSILQILAQD RHNQVQNLHI LDIGVSHGVQ  300
WPTLLEALTR RSGGPPPLVR LTIIAPTAEN DQNAETPFSV GPPGDNYSLQ LLGFAKSMNI  360
NLQINRLESH PLQDLSSQMV STSPEETLIV CTQFRLHHLN HSTPDERTEF LRVLRSLEPK  420
GVILSENNMD CSCGNCGDFA TGFARRVEYL WRFLDSTSAA FKGRESEERR VMEGEAAKAL  480
TNRAEMNEGK DKWCDRMRGV GFVGDVFGED AIDGGRALLR KYDNSWETRV EERDGCIELW  540
WKGQPVSFCS LWKLNVKVED S*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_B3e-3616455327419Protein SHORT-ROOT
5b3h_E3e-3616455327419Protein SHORT-ROOT
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in epidermal and cortical root cells. {ECO:0000269|PubMed:15961669}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator essential for Nod-factor-induced gene expression. Acts downstream of calcium spiking. May be a target of DMI3, a calcium/calmodulin-dependent protein kinase (CCaMK) (PubMed:15961669). Is essential for Nod factor-elicited expression of ERN1 (PubMed:23077241). {ECO:0000269|PubMed:15961669, ECO:0000269|PubMed:23077241}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not induced after treatment with Sinorhizobium meliloti. {ECO:0000269|PubMed:15961669}.
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_006465921.10.0nodulation-signaling pathway 1 protein
SwissprotQ4VYC80.0NSP1_MEDTR; Nodulation-signaling pathway 1 protein
TrEMBLA0A067FFV20.0A0A067FFV2_CITSI; Uncharacterized protein
STRINGXP_006465921.10.0(Citrus sinensis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM107472834
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G13840.11e-165GRAS family protein
Publications ? help Back to Top
  1. Cerri MR, et al.
    Medicago truncatula ERN transcription factors: regulatory interplay with NSP1/NSP2 GRAS factors and expression dynamics throughout rhizobial infection.
    Plant Physiol., 2012. 160(4): p. 2155-72
    [PMID:23077241]
  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]