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 Gorai.003G003200.1
Common NameB456_003G003200, LOC105787407
Organism
Gossypium raimondii
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: 174aa    MW: 20164.5 Da    PI: 8.6776
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.003G003200.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP122.81.5e-3861136277
                         -SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS
                 SBP   2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 
                         Cq+++C adl++ak+yhrrhkvCe h+k + vlv+g++qrfCqqCsrfhe+s+fD +krsCr+rLa+hn rrrk  
  Gorai.003G003200.1  61 CQADECGADLKDAKQYHRRHKVCEPHAKDAFVLVKGIRQRFCQQCSRFHEISKFDGTKRSCRDRLAGHNLRRRKVV 136
                         *************************************************************************976 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5114129.29958135IPR004333Transcription factor, SBP-box
SuperFamilySSF1036121.08E-3461137IPR004333Transcription factor, SBP-box
PfamPF031101.9E-3161134IPR004333Transcription factor, SBP-box
Gene3DG3DSA:4.10.1100.102.5E-3161122IPR004333Transcription 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: 174 aa     Download sequence    Send to blast
MEMAKRACKT TVNWVDDEEE EEQREERMVK IRVVPRERYE RMNTFIHYSN SAAISGGGGG  60
CQADECGADL KDAKQYHRRH KVCEPHAKDA FVLVKGIRQR FCQQCSRFHE ISKFDGTKRS  120
CRDRLAGHNL RRRKVVQSDQ EAENDNSNNK NKASYGKGTD TPMLQQWYQE FTN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A2e-3155134284squamosa promoter binding protein-like 4
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Ubiquitous. {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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKJ6223200.0KJ622320.1 Gossypium hirsutum SQUAMOSA promoter binding-like transcription factor (SPL12) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012469239.11e-129PREDICTED: squamosa promoter-binding-like protein 3
SwissprotQ6Z4617e-33SPL13_ORYSJ; Squamosa promoter-binding-like protein 13
TrEMBLA0A0D2REE11e-128A0A0D2REE1_GOSRA; Uncharacterized protein
STRINGGorai.003G003200.11e-128(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM2206745
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G53160.24e-33squamosa promoter binding protein-like 4
Publications ? help Back to Top
  1. 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]