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 Gh_A12G1380
Organism
Gossypium hirsutum
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: 302aa    MW: 33131.7 Da    PI: 8.2524
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gh_A12G1380genomeNAU-NBIView 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+
  Gh_A12G1380  24 CLVDGCTADLSKCRDYHRRHKVCEVHSKTPKVTIRGQEQRFCQQCSRFHSLVEFDEVKRSCRKRLDGHNRRRRKPQP 100
                  **************************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.104.1E-341785IPR004333Transcription factor, SBP-box
PROSITE profilePS5114132.0772198IPR004333Transcription factor, SBP-box
SuperFamilySSF1036129.29E-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: 302 aa     Download sequence    Send to blast
MESSSSASFK RARAPATGNQ VPSCLVDGCT ADLSKCRDYH RRHKVCEVHS KTPKVTIRGQ  60
EQRFCQQCSR FHSLVEFDEV KRSCRKRLDG HNRRRRKPQP DFMSVNSGGL PYNHQGTRYF  120
PIGSSQMHSW MGGVKVESDM KLINFSGGNS LFPGFSSDNH HKGEKHFSFL QTTASSHPGS  180
GSLCQPFLEA SSSGDNSRKT FSDELNQSID SNRALSLLSS QPAETREIGL SPLVQPASAS  240
FFIPNLQFND VGGMGGEPVG TAILDADVGG 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_A3e-2924971184squamosa 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}.
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}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Negatively regulated by microRNAs miR156b and miR156h. {ECO:0000305|PubMed:16861571}.
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_016722429.10.0PREDICTED: squamosa promoter-binding-like protein 16
RefseqXP_016722430.10.0PREDICTED: squamosa promoter-binding-like protein 16
RefseqXP_016722431.10.0PREDICTED: squamosa promoter-binding-like protein 16
SwissprotQ6YZE84e-55SPL16_ORYSJ; Squamosa promoter-binding-like protein 16
TrEMBLA0A1U8M6J20.0A0A1U8M6J2_GOSHI; squamosa promoter-binding-like protein 16
STRINGGorai.008G166000.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM41112759
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G50670.12e-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. 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]