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 ORGLA08G0230100.1
Organism
Oryza glaberrima
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 SBP
Protein Properties Length: 456aa    MW: 46798.2 Da    PI: 7.5194
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA08G0230100.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP122.81.5e-38121198278
                        -SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTS.SEEETTT--SS--S-STTTT-------S--- CS
                SBP   2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCs.rfhelsefDeekrsCrrrLakhnerrrkkqa 78 
                        C v+gC++dls++++yhrrhkvCe+hsk+p v+vsg+e rfCqqCs rfh l+efDe+krsCr+rL++hn+rrrk+q+
  ORGLA08G0230100.1 121 CAVDGCKEDLSKCRDYHRRHKVCEAHSKTPLVVVSGREMRFCQQCShRFHLLQEFDEAKRSCRKRLDGHNRRRRKPQP 198
                        *********************************************989***************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.104.2E-32114183IPR004333Transcription factor, SBP-box
PROSITE profilePS5114130.188118196IPR004333Transcription factor, SBP-box
SuperFamilySSF1036121.15E-35119201IPR004333Transcription factor, SBP-box
PfamPF031102.5E-28121195IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0048653Biological Processanther development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 456 aa     Download sequence    Send to blast
MEWDLKMPPA VSWELADELE NSGGGGVPAA VSSSSAAVGG GVNAGGGGRQ ECSVDLKLGG  60
LGEFGGGGAQ PRVAVAGEPA KGKGPAAAAT GAAAAASSAP AKRPRGAAAA AAAGQQQCPS  120
CAVDGCKEDL SKCRDYHRRH KVCEAHSKTP LVVVSGREMR FCQQCSHRFH LLQEFDEAKR  180
SCRKRLDGHN RRRRKPQPDP MNSASYLASQ QGARFSPFAT PRPEPSWTGM IKTEDSPYYT  240
HHQIPLGISS RQQHFVGSTS DGGRRFPFLQ EGEISFGTGA SAGGVPMDQA AAAAAASVCQ  300
PLLKTVAPPP PPHGGGGKMF SDGGLTQVLD SDCALSLLSA PANSTAIDVG GGRVVVQPTE  360
HIPMAQPLIS GLQFGGGGGG SSAWFAARPH HQAATGAAAT AVVVSTAGFS CPVVESEQLN  420
TVLSSNDNEM NYNGMFHVGG EGSSDGTSSS LPFSWQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A5e-261211951184squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1178195KRSCRKRLDGHNRRRRKP
Functional Description ? help Back to Top
Source Description
UniProtTrans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3' (By similarity). May be involved in panicle development. {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00555DAPTransfer from AT5G50570Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA08G0230100.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Negatively regulated by microRNAs miR156b and miR156h. {ECO:0000305|PubMed:16861571}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1094690.0AK109469.1 Oryza sativa Japonica Group cDNA clone:001-128-D02, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015649377.10.0squamosa promoter-binding-like protein 16
SwissprotQ6YZE80.0SPL16_ORYSJ; Squamosa promoter-binding-like protein 16
TrEMBLI1QLK00.0I1QLK0_ORYGL; Uncharacterized protein
STRINGORGLA08G0230100.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP17553795
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G50670.14e-42SBP family protein
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. Wang SS,Wang CS,Tseng TH,Hou YL,Chen KY
    High-resolution genetic mapping and candidate gene identification of the SLP1 locus that controls glume development in rice.
    Theor. Appl. Genet., 2011. 122(8): p. 1489-96
    [PMID:21327937]
  3. Wang S, et al.
    Control of grain size, shape and quality by OsSPL16 in rice.
    Nat. Genet., 2012. 44(8): p. 950-4
    [PMID:22729225]
  4. Wang S, et al.
    The OsSPL16-GW7 regulatory module determines grain shape and simultaneously improves rice yield and grain quality.
    Nat. Genet., 2015. 47(8): p. 949-54
    [PMID:26147620]
  5. Wang Y, et al.
    A comprehensive meta-analysis of plant morphology, yield, stay-green, and virus disease resistance QTL in maize (Zea mays L.).
    Planta, 2016. 243(2): p. 459-71
    [PMID:26474992]
  6. Lee CM, et al.
    Influence of Multi-Gene Allele Combinations on Grain Size of Rice and Development of a Regression Equation Model to Predict Grain Parameters.
    Rice (N Y), 2015. 8(1): p. 33
    [PMID:26519289]
  7. Bessho-Uehara K, et al.
    Loss of function at RAE2, a previously unidentified EPFL, is required for awnlessness in cultivated Asian rice.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(32): p. 8969-74
    [PMID:27466405]