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.009G097100.4
Common NameB456_009G097100, LOC105768867
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 G2-like
Protein Properties Length: 345aa    MW: 37028.3 Da    PI: 5.1955
Description G2-like family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.009G097100.4genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1G2-like94.67.8e-30169222155
             G2-like   1 kprlrWtpeLHerFveaveqLGGsekAtPktilelmkvkgLtlehvkSHLQkYRl 55 
                         ++rl+Wtp+LH+rFv++v++L G+++A+Pkti++lm+v+gLt+e+v+SHLQkYRl
  Gorai.009G097100.4 169 RQRLVWTPQLHKRFVDVVAHL-GIKNAVPKTIMQLMNVEGLTRENVASHLQKYRL 222
                         58*******************.********************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.67E-19166226IPR009057Homeodomain-like
PROSITE profilePS5129411.24166225IPR017930Myb domain
Gene3DG3DSA:1.10.10.609.1E-30168227IPR009057Homeodomain-like
TIGRFAMsTIGR015571.2E-23170222IPR006447Myb domain, plants
PfamPF002496.2E-8172221IPR001005SANT/Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 345 aa     Download sequence    Send to blast
MGGEVKIGVF EANGRDDEAI ATATDAVVDE EDDVNERVLE WEMGLPNCDD LTPLSQLLVP  60
PELASAFSIS PEPRRTALDV NRASQDTLSS LRSTGAHSST TNNNNNNNNN NNFRSFDDPM  120
VVEPEGDGSG SGSGSDPKKM RMMEIAEEAD SAVRTAENSD DPSGKTVKRQ RLVWTPQLHK  180
RFVDVVAHLG IKNAVPKTIM QLMNVEGLTR ENVASHLQKY RLYLKRMQGL SNEGPSASDQ  240
LFASTPVPQS MHANGAGVGG GGGIGVGGGS VNSNGHVGMT LPMLYGASMI PMPMPMYGPV  300
HQGGNHHPQN GYEANSYGMM QQRDWSGGNK YGKLLICLVF IHYS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5lxu_A4e-34169225157Transcription factor LUX
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that is essential for the generation of the circadian clock oscillation. Is necessary for activation of CCA1 and LHY expression. Is coregulated with TOC1 and seems to be repressed by CCA1 and LHY by direct binding of these proteins to the evening element in the LUX promoter. Directly regulates the expression of PRR9, a major component of the morning transcriptional feedback circuit, by binding specific sites on PRR9 promoter. Binds to its own promoter, inducing a negative auto-regulatory feedback loop within the core clock. Binds to ELF3 and associates with ELF4 in a diurnal complex which is required for the expression of the growth-promoting transcription factors PIF4 and PIF5 and subsequent hypocotyl growth in the early evening. {ECO:0000269|PubMed:16006522, ECO:0000269|PubMed:16164597, ECO:0000269|PubMed:21236673, ECO:0000269|PubMed:21753751, ECO:0000269|PubMed:22311777}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Circadian oscillation with peaks at subjective dusk. {ECO:0000269|PubMed:16006522, ECO:0000269|PubMed:16164597, ECO:0000269|PubMed:17132630, ECO:0000269|PubMed:21753751}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX6150170.0JX615017.1 Gossypium hirsutum clone NBRI_GE58778 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012444553.10.0PREDICTED: transcription factor PCL1 isoform X6
SwissprotQ9SNB42e-80PCL1_ARATH; Transcription factor LUX
TrEMBLA0A0D2QCI80.0A0A0D2QCI8_GOSRA; Uncharacterized protein
STRINGGorai.009G097100.10.0(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G46640.21e-75G2-like 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. Higham CF,Husmeier D
    A Bayesian approach for parameter estimation in the extended clock gene circuit of Arabidopsis thaliana.
    BMC Bioinformatics, 2013. 14 Suppl 10: p. S3
    [PMID:24267177]