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.001G057700.1
Common NameB456_001G057700, LOC105786068
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: 353aa    MW: 39559.4 Da    PI: 9.2338
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.001G057700.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP123.21.1e-38103178277
                         -SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS
                 SBP   2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 
                         C v+gC+++ls++k+yhrr kvC+ hska++v+++g++qrfCqqCsrfh+l+efDe+krsCr+rL++hn+rrrk+q
  Gorai.001G057700.1 103 CLVDGCNSELSKCKDYHRRNKVCQLHSKAAQVFINGKKQRFCQQCSRFHSLEEFDERKRSCRKRLEGHNRRRRKPQ 178
                         9*************************************************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.105.4E-3195164IPR004333Transcription factor, SBP-box
PROSITE profilePS5114130.308100177IPR004333Transcription factor, SBP-box
SuperFamilySSF1036121.44E-35101179IPR004333Transcription factor, SBP-box
PfamPF031101.5E-29103176IPR004333Transcription 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: 353 aa     Download sequence    Send to blast
MNNPFALNTF QRDKQLDWNL SNSNSCMDWN LGGATTWNLP TIVEEPSFDT INGSSNGDFS  60
VDLKLGPLNK WKKPPLPMAS SSSSSSKRAG ASNNNGSRQQ VWCLVDGCNS ELSKCKDYHR  120
RNKVCQLHSK AAQVFINGKK QRFCQQCSRF HSLEEFDERK RSCRKRLEGH NRRRRKPQSM  180
YPLSLMRPGT YFSDYQGTES FPFASLNIPT WPGVNTQEPI VKKDTLQNRT PPTCQSFRTA  240
PEGNGGSSSH NVSCDRLVPW FRDADYALSL LSSVRTQPTS GIGSSNLVQS HSFALVHPSR  300
LSVANPVVEP MGSLAVANDR DDRVHCPQMV HMDCGECSKT QDPHTLPFHR KY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A5e-2990176184squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1158175RKRSCRKRLEGHNRRRRK
2158176RKRSCRKRLEGHNRRRRKP
3159176KRSCRKRLEGHNRRRRKP
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Weak increase of expression during floral induction. {ECO:0000269|PubMed:14573523}.
Functional Description ? help Back to Top
Source Description
UniProtTrans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.
UniProtTrans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Negatively regulated by microRNAs miR156 and miR157. {ECO:0000305|PubMed:12202040}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKJ6223210.0KJ622321.1 Gossypium hirsutum SQUAMOSA promoter binding-like transcription factor (SPL13) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012467788.10.0PREDICTED: squamosa promoter-binding-like protein 13A
SwissprotB9DI207e-49SP13A_ARATH; Squamosa promoter-binding-like protein 13A
SwissprotP0DI117e-49SP13B_ARATH; Squamosa promoter-binding-like protein 13B
TrEMBLA0A0D2LVA30.0A0A0D2LVA3_GOSRA; Uncharacterized protein
STRINGGorai.001G057700.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM2471034
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G50670.13e-48SBP family protein
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]
  2. Jorgensen SA,Preston JC
    Differential SPL gene expression patterns reveal candidate genes underlying flowering time and architectural differences in Mimulus and Arabidopsis.
    Mol. Phylogenet. Evol., 2014. 73: p. 129-39
    [PMID:24508602]
  3. Xu M, et al.
    Developmental Functions of miR156-Regulated SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) Genes in Arabidopsis thaliana.
    PLoS Genet., 2016. 12(8): p. e1006263
    [PMID:27541584]