PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Gorai.008G166000.2
Common NameB456_008G166000, LOC105764349
Organism
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 SBP
Protein Properties Length: 303aa    MW: 33199.8 Da    PI: 8.4275
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.008G166000.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP1322e-4124100278
                         -SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS
                 SBP   2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 
                         C v+gC+adls++++yhrrhkvCevhsk+p+v+++g+eqrfCqqCsrfh+l efDe krsCr+rL++hn+rrrk+q+
  Gorai.008G166000.2  24 CLVDGCTADLSKCRDYHRRHKVCEVHSKTPKVTIRGQEQRFCQQCSRFHSLVEFDEVKRSCRKRLDGHNRRRRKPQP 100
                         **************************************************************************997 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.105.5E-341785IPR004333Transcription factor, SBP-box
PROSITE profilePS5114132.0092198IPR004333Transcription factor, SBP-box
SuperFamilySSF1036128.89E-3922104IPR004333Transcription factor, SBP-box
PfamPF031102.2E-302497IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 303 aa     Download sequence    Send to blast
MESSSSASFK RARAPATGNQ LPSCLVDGCT ADLSKCRDYH RRHKVCEVHS KTPKVTIRGQ  60
EQRFCQQCSR FHSLVEFDEV KRSCRKRLDG HNRRRRKPQP DFMSVNSGRF PYNHQGTRYF  120
PIGSSQMHSW MGGVKVESDM KLINFSGGNS LFPGFSSDNH HKGEKHFSFL QTTASSHPGS  180
GSLCQPFFEA SSSGDNSRKM FSDGLNQAID SDRALSLLSS QPAETREIGL SPMVQPASAS  240
FVIPNLQFND VGGMGGEPVG TSILDADGGG NNSHLQGHEM FQNEHLGSSA TGAHHTLSFS  300
WE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A2e-292197884squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
18097KRSCRKRLDGHNRRRRKP
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in young panicles. {ECO:0000269|PubMed:16861571}.
UniprotTISSUE SPECIFICITY: Strongly expressed in immature ears and weakly in husks. Found in the inflorescence meristem of the developing ear, in the spikelet pair primordia, the glume primordia, the cupule forming region and other floral organs. Not detected in other tissues. {ECO:0000250|UniProtKB:Q49I55}.
UniprotTISSUE SPECIFICITY: Strongly expressed in immature ears and weakly in husks. Found in the inflorescence meristem of the developing ear, in the spikelet pair primordia, the glume primordia, the cupule forming region and other floral organs. Not detected in other tissues. {ECO:0000269|PubMed:16079849}.
Functional Description ? help Back to Top
Source Description
UniProtSBP transcriptional regulator probably involved in the domestication of maize. Acts as a transcriptional repressor binding to a 5'-GTAC-3' motif. May repress the growth of lateral branches in length and numbers. {ECO:0000250|UniProtKB:Q49I55}.
UniProtSBP transcriptional regulator probably involved in the domestication of maize (PubMed:16079849). Acts as a transcriptional repressor binding to a 5'-GTAC-3' motif (PubMed:25943393). May repress the growth of lateral branches in length and numbers (PubMed:25943393). {ECO:0000269|PubMed:16079849, ECO:0000269|PubMed:25943393}.
UniProtTrans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3' (By similarity). May be involved in panicle development. {ECO:0000250}.
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
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKJ6223270.0KJ622327.1 Gossypium hirsutum SQUAMOSA promoter binding-like transcription factor (SPL19) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012438339.10.0PREDICTED: squamosa promoter-binding-like protein 16
RefseqXP_012438340.10.0PREDICTED: squamosa promoter-binding-like protein 16
RefseqXP_012438341.10.0PREDICTED: squamosa promoter-binding-like protein 16
RefseqXP_012438342.10.0PREDICTED: squamosa promoter-binding-like protein 16
SwissprotQ49I555e-58TGA1W_MAIZE; Teosinte glume architecture 1
SwissprotQ49I574e-58TGA1B_MAIZE; Teosinte glume architecture 1
SwissprotQ6YZE86e-58SPL16_ORYSJ; Squamosa promoter-binding-like protein 16
TrEMBLA0A0D2U4F50.0A0A0D2U4F5_GOSRA; Uncharacterized protein
STRINGGorai.008G166000.10.0(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G50670.13e-47SBP 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. Schnable PS, et al.
    The B73 maize genome: complexity, diversity, and dynamics.
    Science, 2009. 326(5956): p. 1112-5
    [PMID:19965430]
  3. 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]
  4. 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]
  5. 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]
  6. Wang H,Studer AJ,Zhao Q,Meeley R,Doebley JF
    Evidence That the Origin of Naked Kernels During Maize Domestication Was Caused by a Single Amino Acid Substitution in tga1.
    Genetics, 2015. 200(3): p. 965-74
    [PMID:25943393]
  7. 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]
  8. 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]
  9. 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]
  10. 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]