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 ONIVA06G24530.1
Organism
Oryza nivara
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family GRAS
Protein Properties Length: 507aa    MW: 52165.8 Da    PI: 7.2429
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ONIVA06G24530.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS302.11.4e-921175032374
             GRAS   2 velLlecAeavssgdlelaqalLarlsel.aspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfs 94 
                      ++lLl+cA+ ++ gdl +a+++ + +    asp+gd+  Rla +f++ALa r+  +  +  + +    ++      +  a+ +f+++ P+l+f+
  ONIVA06G24530.1 117 RDLLLACADLLQRGDLPAARRAAEIVLAAaASPRGDAADRLAYHFARALALRVDAK-AGHGHVVVGGGAA---RPASSGAYLAFNQIAPFLRFA 206
                      689*****************9999876665***********************993.3334444333333...4566778999*********** PP

             GRAS  95 hltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRp...egppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvl.... 181
                      hltaNqaIleav+g++rvHi+D+d+ +G+QWp+Llqa+a+R+    gpp++R+Tg g+    ++++l +tg+rL+ fA+++++pf+f++l    
  ONIVA06G24530.1 207 HLTANQAILEAVDGARRVHILDLDAVHGVQWPPLLQAIAERAdpaLGPPEVRVTGAGA----DRDTLLRTGNRLRAFARSIHLPFHFTPLllsc 296
                      ******************************************66666***********....9***************************9999 PP

             GRAS 182 ...............vakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnse......sFl 254
                                     +a++ ++     L+++p+E+laVn+v+ lh+l       ++e  ++Lk vk +sP vv+++e+ea  +++      ++ 
  ONIVA06G24530.1 297 attaphhvagtstgaAATASTAAAATGLEFHPDETLAVNCVMFLHNLA-----GHDELAAFLKWVKAMSPAVVTIAEREAGGGGGggdhidDLP 385
                      9999988877776644444555578889*******************8.....2233567*******************9996655788889** PP

             GRAS 255 erflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sd 347
                      +r+  a+++ysa+f++lea++p+ s+er  vE+e+lgrei+ +v  +g +     +  e+W  + ++aGF + pls +a++qa+lllr ++ s+
  ONIVA06G24530.1 386 RRVGVAMDHYSAVFEALEATVPPGSRERLAVEQEVLGREIEAAVGPSGGR---WWRGIERWGGAARAAGFAARPLSAFAVSQARLLLRLHYpSE 476
                      *********************************************99998...78899************************************ PP

             GRAS 348 gyrveeesgslvlgWkdrpLvsvSaWr 374
                      gy v+e +g+ +lgW++rpL+svSaW+
  ONIVA06G24530.1 477 GYLVQEARGACFLGWQTRPLLSVSAWQ 503
                      **************************6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098552.57790482IPR005202Transcription factor GRAS
PfamPF035144.8E-90117503IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010014Biological Processmeristem initiation
GO:0010223Biological Processsecondary shoot formation
GO:0005634Cellular Componentnucleus
Sequence ? help Back to Top
Protein Sequence    Length: 507 aa     Download sequence    Send to blast
MSCQGSCNCK PRCWTCTLAL PIKPALLRCS LSSSPLAAAA ATFSGSSPSF SGGGGGDDDG  60
YGGGDGMLRS LHSSSSSDTD NNSGGCKNNG GGGGEAAAAV EGGGDQRAVA AAAPSTRDLL  120
LACADLLQRG DLPAARRAAE IVLAAAASPR GDAADRLAYH FARALALRVD AKAGHGHVVV  180
GGGAARPASS GAYLAFNQIA PFLRFAHLTA NQAILEAVDG ARRVHILDLD AVHGVQWPPL  240
LQAIAERADP ALGPPEVRVT GAGADRDTLL RTGNRLRAFA RSIHLPFHFT PLLLSCATTA  300
PHHVAGTSTG AAATASTAAA ATGLEFHPDE TLAVNCVMFL HNLAGHDELA AFLKWVKAMS  360
PAVVTIAERE AGGGGGGGDH IDDLPRRVGV AMDHYSAVFE ALEATVPPGS RERLAVEQEV  420
LGREIEAAVG PSGGRWWRGI ERWGGAARAA GFAARPLSAF AVSQARLLLR LHYPSEGYLV  480
QEARGACFLG WQTRPLLSVS AWQPSSS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A1e-5014550331375GRAS family transcription factor containing protein, expressed
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtPutative transcription regulator that controls rice tillering by initiating axillary buds and promoting their outgrowth. Rice tiller is a specialized grain-bearing branch that is formed on the unelongated basal internode and grows independently of the mother stem (culm) by means of its own adventitious roots. {ECO:0000269|PubMed:12687001}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankFJ0326250.0FJ032625.1 Oryza nivara clone a0074E19 SEC14-like protein gene, partial cds; ABC transporter-like protein, 26S protease regulatory subunit S10B, C2 domain-containing protein, U5 small nuclear ribonucleoprotein component, charged multivesicular body protein 4b, putative SFT2 protein, fructose-bisphosphate aldolase cytoplasmic isozyme, copine-1, subtilisin-like protease precursor, ZAC, MYB-CC type transfactor, calcium ion binding protein, Monoculm1, Mlo family protein, aspartic proteinase nepenthesin-1 precursor, microtubule-associated protein MAP65-1a, IQ calmodulin-binding motif family protein, and EMB2261 putative genes, complete cds; and unknown genes.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015642672.10.0protein MONOCULM 1
SwissprotQ84MM90.0MOC_ORYSJ; Protein MONOCULM 1
TrEMBLA0A0E0HTD60.0A0A0E0HTD6_ORYNI; Uncharacterized protein
STRINGONIVA06G24530.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP36533479
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G55580.12e-67GRAS family protein
Publications ? help Back to Top
  1. Li X, et al.
    Control of tillering in rice.
    Nature, 2003. 422(6932): p. 618-21
    [PMID:12687001]
  2. Sun F, et al.
    Identification and functional analysis of the MOC1 interacting protein 1.
    J Genet Genomics, 2010. 37(1): p. 69-77
    [PMID:20171579]
  3. Sanyal A, et al.
    Orthologous comparisons of the Hd1 region across genera reveal Hd1 gene lability within diploid Oryza species and disruptions to microsynteny in Sorghum.
    Mol. Biol. Evol., 2010. 27(11): p. 2487-506
    [PMID:20522726]
  4. Yan WH, et al.
    A major QTL, Ghd8, plays pleiotropic roles in regulating grain productivity, plant height, and heading date in rice.
    Mol Plant, 2011. 4(2): p. 319-30
    [PMID:21148627]
  5. Xu C, et al.
    Degradation of MONOCULM 1 by APC/C(TAD1) regulates rice tillering.
    Nat Commun, 2012. 3: p. 750
    [PMID:22434193]
  6. Lin Q, et al.
    Rice APC/C(TE) controls tillering by mediating the degradation of MONOCULM 1.
    Nat Commun, 2012. 3: p. 752
    [PMID:22434195]
  7. Liang WH,Shang F,Lin QT,Lou C,Zhang J
    Tillering and panicle branching genes in rice.
    Gene, 2014. 537(1): p. 1-5
    [PMID:24345551]
  8. Zhang B, et al.
    Novel function of a putative MOC1 ortholog associated with spikelet number per spike in common wheat.
    Sci Rep, 2015. 5: p. 12211
    [PMID:26197925]