PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Gorai.011G058900.1
Common NameB456_011G058900, LOC105777609
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: 546aa    MW: 60050.1 Da    PI: 5.8589
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.011G058900.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS269.79.3e-831625372374
                GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilk 92 
                         ++lL  cA+a+++g+l+++q+lL  l+elas++gd+++Rla + ++AL ++l++s+     + +p + ++++ +    +l  f+evsP++ 
  Gorai.011G058900.1 162 EQLLNPCATAITTGNLTRVQHLLYVLNELASSTGDANHRLADHGLRALTHHLSSSSA----STAPVTFASTEPKFFQRSLLKFYEVSPWFA 248
                         689**************************************************9332....233444443445555556666********* PP

                GRAS  93 fshltaNqaIleavege....ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg.........skeeleetgerLakfA 169
                         f + +aN  Il+ +++e    + +Hi+D+++s+G+QWp+Ll+aL+ Rp ++pp +RiT+v++ +++              +   +rL  fA
  Gorai.011G058900.1 249 FPNTIANASILQILAQEpdkpRNLHILDIGVSHGVQWPTLLEALSRRPgGPPPVVRITVVAATAENnqitdtpfsIGPPGHDFYSRLPGFA 339
                         *****************9998999************************55667*******997777888888887777889999******* PP

                GRAS 170 eelgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnse...sFlerf 257
                         +++++++++n l  + ++ l+ + ++ ++gE+l+V+ +++lh+l    ++ +++r+e+Lk+++sl+Pk v+++e+++d++ +   +F+++f
  Gorai.011G058900.1 340 KSMNINLQINRLENHPIQHLNAQIINNSHGETLIVCAQFRLHHLN---HNGPDQRTEFLKVLRSLEPKGVILSENNMDCSCSscgDFATGF 427
                         ***********9999*****************************8...55556678********************9984433459***** PP

                GRAS 258 lealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sd 347
                         ++ +ey+++++ds+++ +    + r + Er++++ e+ ++++++g++    +e +ekW er++ +GF++  ++e+a + a++llrk++ ++
  Gorai.011G058900.1 428 SRRVEYVWKFLDSTSSAF----KGRESEERRVMEGEAAKALTNQGEM----NEGKEKWYERMQGVGFRAEVFGEDAIDGARALLRKYDsNW 510
                         **************7775....677777777778889********99....9************************************999 PP

                GRAS 348 gyrveeesgslvlgWkdrpLvsvSaWr 374
                         ++ vee++g++ l Wk++p+ ++S W+
  Gorai.011G058900.1 511 EMIVEEKEGCVGLWWKGQPVSFCSLWK 537
                         9*************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098541.722135516IPR005202Transcription factor GRAS
PfamPF035143.2E-80162537IPR005202Transcription 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: 546 aa     Download sequence    Send to blast
MTLEESAEPN PSQDHILDWL EDSASLLPSF LDDPYSPGDI SGYEWWDPNH DFGQDLITIG  60
AAAASINSPA IAAAVSNVDA GLVQSDSAVV NPPVPLSSSK RRRPTDSIVP RMSKKSSNGK  120
NDENEDGKAG VEEVVGNKRS AGNKRNKSSG NNGNNKEGRW AEQLLNPCAT AITTGNLTRV  180
QHLLYVLNEL ASSTGDANHR LADHGLRALT HHLSSSSAST APVTFASTEP KFFQRSLLKF  240
YEVSPWFAFP NTIANASILQ ILAQEPDKPR NLHILDIGVS HGVQWPTLLE ALSRRPGGPP  300
PVVRITVVAA TAENNQITDT PFSIGPPGHD FYSRLPGFAK SMNINLQINR LENHPIQHLN  360
AQIINNSHGE TLIVCAQFRL HHLNHNGPDQ RTEFLKVLRS LEPKGVILSE NNMDCSCSSC  420
GDFATGFSRR VEYVWKFLDS TSSAFKGRES EERRVMEGEA AKALTNQGEM NEGKEKWYER  480
MQGVGFRAEV FGEDAIDGAR ALLRKYDSNW EMIVEEKEGC VGLWWKGQPV SFCSLWKLDV  540
KVEES*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_B7e-3915853730419Protein SHORT-ROOT
5b3h_E7e-3915853730419Protein 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_012456409.10.0PREDICTED: nodulation-signaling pathway 1 protein
SwissprotQ4VYC80.0NSP1_MEDTR; Nodulation-signaling pathway 1 protein
TrEMBLA0A0D2RHM30.0A0A0D2RHM3_GOSRA; Uncharacterized protein
STRINGGorai.011G058900.10.0(Gossypium raimondii)
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-164GRAS 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. 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]
  3. 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]