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 BGIOSGA013499-PA
Organism
Oryza sativa subsp. indica
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; Oryza sativa
Family GRF
Protein Properties Length: 971aa    MW: 102328 Da    PI: 8.3481
Description GRF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
BGIOSGA013499-PAgenomeRISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1WRC75.84.5e-24223267145
               WRC   1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 
                       d+epgrCrRtDGKkWRCsr++++++k+CErH++rgr+rsrk++e 
  BGIOSGA013499-PA 223 DPEPGRCRRTDGKKWRCSRDAVADQKYCERHMNRGRHRSRKHVEG 267
                       79****************************************986 PP
2QLQ56.68e-20157193137
               QLQ   1 saFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 
                       ++FT++Q+ +L++Q+l+yKyLaan PvP+ Ll +i++
  BGIOSGA013499-PA 157 GPFTPSQWIELEHQALIYKYLAANSPVPHSLLIPIRR 193
                       59*********************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM009512.2E-11157193IPR014978Glutamine-Leucine-Glutamine, QLQ
PfamPF088801.8E-14158192IPR014978Glutamine-Leucine-Glutamine, QLQ
PROSITE profilePS5166623.087158193IPR014978Glutamine-Leucine-Glutamine, QLQ
PROSITE profilePS5166725.455223267IPR014977WRC domain
PfamPF088793.9E-20224266IPR014977WRC domain
Gene3DG3DSA:3.40.1280.104.0E-59739962IPR029026tRNA (guanine-N1-)-methyltransferase, N-terminal
SuperFamilySSF886973.23E-10740794IPR015947PUA-like domain
TIGRFAMsTIGR000464.9E-35742957IPR006700Ribosomal RNA small subunit methyltransferase E
PfamPF044521.6E-46744957IPR006700Ribosomal RNA small subunit methyltransferase E
SuperFamilySSF752174.5E-33807960IPR029028Alpha/beta knot methyltransferases
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0006364Biological ProcessrRNA processing
GO:0005634Cellular Componentnucleus
GO:0005524Molecular FunctionATP binding
GO:0008168Molecular Functionmethyltransferase activity
Sequence ? help Back to Top
Protein Sequence    Length: 971 aa     Download sequence    Send to blast
MDLGGGVGVV MAAVDGGGGG ELGGGGLLGS RLMKHGRGNA GDQEHGWRPP AKQARGGDAS  60
SAAXAVPAAA XVSEAVKVAA PFLLGASCSP GHGGEQMLSF SSSASSCSSG GGGAAVAAAA  120
AAGGAMPLYY GTPASCSGLS SVSLSSSMQG AMARVRGPFT PSQWIELEHQ ALIYKYLAAN  180
SPVPHSLLIP IRRSLTSPYS PAYFGSSTLG WGSFQLGYSG SADPEPGRCR RTDGKKWRCS  240
RDAVADQKYC ERHMNRGRHR SRKHVEGQPG HAAKAMPAAV AAAAASATQP SAPAAHSGGA  300
VAGLAINHQH QQMKNYAANT ANPCSLQYSR DLANKHNESE QVQDSDSLSM LTSISTRNTG  360
SLFPFSKQHN PFEVSNSRPD FGLVSPDSLM SSPHSSLENV NLLTSQSLNE QQSSVSLQHF  420
VDWPRTPAQG ALAWPDAEDM QAQRSQLSIS APMASSDLSS ASTSPIHEKL MLSPLKLSRE  480
YSPIGLGFAA NRDEVNQGEA NWMPMFRDSL MGGPLGEVLT KNNNMEARNC LSESLNLLND  540
GWDSSSGFDS SPVGVLQKTT FGSVSSSTGS SPRLENHSVY DGNSNLRDDL GSVVVNHPSI  600
RLVAHREGRC GTRVPTALHV GPTIVVGPHC AVVRIRAPPP PQQHDPFLAA YVACTKGRAC  660
AGNNKKKKKA KAAARGGCGM WNGWASGARY ARVMSCRHGG AVTVLQGATP LPAVAGYAES  720
PAHPTLDLSR LPAVLPGRRR GEEVRIQGDE FWHMTRVLRL GINDRVELFD GAGGLVEGSI  780
QKVDKGGSDV KLLEDARLIA PDGIQWHGTL KGGRADWLVE KCTELGACSV TPLLTERCHT  840
VAENRVDRLQ RLVLAAVKQC QRIHGMLLNP PIQIADLQPV VSQSKLAFVA SAESPPLLST  900
LPKSCNEESG LLIVGPEGDF TEEEVNVLKA SGAVPVGLGP CRLRVETATI SLLSALMLWS  960
DAHRQETLKC R
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1v6z_A2e-1575094719213hypothetical protein TTHA0657
1v6z_B2e-1575094719213hypothetical protein TTHA0657
2cx8_A2e-1575094719213methyl transferase
2cx8_B2e-1575094719213methyl transferase
2z0y_A2e-1575094719213Putative uncharacterized protein TTHA0657
2z0y_B2e-1575094719213Putative uncharacterized protein TTHA0657
5o95_A3e-1573695612238Ribosomal RNA small subunit methyltransferase E
5o95_B3e-1573695612238Ribosomal RNA small subunit methyltransferase E
5o95_C3e-1573695612238Ribosomal RNA small subunit methyltransferase E
5o95_D3e-1573695612238Ribosomal RNA small subunit methyltransferase E
5o96_A3e-1573695612238Ribosomal RNA small subunit methyltransferase E
5o96_B3e-1573695612238Ribosomal RNA small subunit methyltransferase E
5o96_C3e-1573695612238Ribosomal RNA small subunit methyltransferase E
5o96_D3e-1573695612238Ribosomal RNA small subunit methyltransferase E
5o96_E3e-1573695612238Ribosomal RNA small subunit methyltransferase E
5o96_F3e-1573695612238Ribosomal RNA small subunit methyltransferase E
5o96_G3e-1573695612238Ribosomal RNA small subunit methyltransferase E
5o96_H3e-1573695612238Ribosomal RNA small subunit methyltransferase E
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.497510.0callus
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329836010.0
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that plays a regulatory role in gibberellin-induced stem elongation. {ECO:0000250}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0735780.0AK073578.1 Oryza sativa Japonica Group cDNA clone:J033048N01, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015628630.10.0growth-regulating factor 6
SwissprotQ6AWY30.0GRF6_ORYSJ; Growth-regulating factor 6
TrEMBLA0A0E0P0T70.0A0A0E0P0T7_ORYRU; Uncharacterized protein
STRINGORUFI03G34250.10.0(Oryza rufipogon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP42903568
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22840.12e-51growth-regulating factor 1
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Liu H, et al.
    OsmiR396d-regulated OsGRFs function in floral organogenesis in rice through binding to their targets OsJMJ706 and OsCR4.
    Plant Physiol., 2014. 165(1): p. 160-74
    [PMID:24596329]
  3. Gao F, et al.
    Blocking miR396 increases rice yield by shaping inflorescence architecture.
    Nat Plants, 2015. 2: p. 15196
    [PMID:27250748]