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.002G244200.1
Common NameB456_002G244200, LOC105786382
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 HD-ZIP
Protein Properties Length: 230aa    MW: 26896.2 Da    PI: 9.1507
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.002G244200.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox60.42.8e-1966119356
                         --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
            Homeobox   3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                         k+ ++t++ql+ Le+ F+++ +++ +++ +L+++lgL+ rq+ vWFqNrRa++k
  Gorai.002G244200.1  66 KKKRLTSDQLDSLEKNFQEEIKLDPDRKMKLSRELGLQPRQIAVWFQNRRARWK 119
                         56679************************************************9 PP
2HD-ZIP_I/II117.86.2e-3866156292
         HD-ZIP_I/II   2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelk 92 
                         kk+rl+++q+ +LE++F+ee kL+p+rK++l+reLglqprq+avWFqnrRAR+k+kqlE+ y++Lk+++da+++e+++L++ev +L+  l+
  Gorai.002G244200.1  66 KKKRLTSDQLDSLEKNFQEEIKLDPDRKMKLSRELGLQPRQIAVWFQNRRARWKAKQLERLYDSLKQEFDAISREKQKLQDEVMKLKGILR 156
                         9*************************************************************************************97665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.2E-1859123IPR009057Homeodomain-like
PROSITE profilePS5007117.28161121IPR001356Homeobox domain
SMARTSM003892.7E-1664125IPR001356Homeobox domain
PfamPF000461.1E-1666119IPR001356Homeobox domain
CDDcd000862.64E-1566122No hitNo description
Gene3DG3DSA:1.10.10.601.3E-2071120IPR009057Homeodomain-like
PRINTSPR000314.0E-592101IPR000047Helix-turn-helix motif
PROSITE patternPS00027096119IPR017970Homeobox, conserved site
PRINTSPR000314.0E-5101117IPR000047Helix-turn-helix motif
PfamPF021835.0E-9121155IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009965Biological Processleaf morphogenesis
GO:0010434Biological Processbract formation
GO:0010582Biological Processfloral meristem determinacy
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 230 aa     Download sequence    Send to blast
MDWNNTFRPF VSRPEPSLNF LYSNYNYDQY PGMEMKQHQG FMDLGNEMVL PGLNKNSFNN  60
NVNQDKKKRL TSDQLDSLEK NFQEEIKLDP DRKMKLSREL GLQPRQIAVW FQNRRARWKA  120
KQLERLYDSL KQEFDAISRE KQKLQDEVMK LKGILREQVT RNQVSTVYTE ISGEETVEST  180
SIRSSNKPKI AGNNHHPHPV AACNYLFNVD EYNPVSSPYW GTVQLPSYP*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1113121RRARWKAKQ
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Widely expressed. {ECO:0000269|PubMed:16055682}.
Functional Description ? help Back to Top
Source Description
UniProtPutative transcription factor. {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00486DAPTransfer from AT5G03790Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX5879791e-69JX587979.1 Gossypium hirsutum clone NBRI_GE22268 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012468224.11e-172PREDICTED: homeobox-leucine zipper protein ATHB-22-like
SwissprotQ9LZR01e-53ATB51_ARATH; Putative homeobox-leucine zipper protein ATHB-51
TrEMBLA0A0D2MFG11e-170A0A0D2MFG1_GOSRA; Uncharacterized protein
STRINGGorai.002G244200.11e-171(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM16602888
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G03790.14e-56homeobox 51
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. Andres RJ, et al.
    Modifications to a LATE MERISTEM IDENTITY1 gene are responsible for the major leaf shapes of Upland cotton (Gossypium hirsutum L.).
    Proc. Natl. Acad. Sci. U.S.A., 2017. 114(1): p. E57-E66
    [PMID:27999177]
  3. Vuolo F, et al.
    LMI1 homeodomain protein regulates organ proportions by spatial modulation of endoreduplication.
    Genes Dev., 2018. 32(21-22): p. 1361-1366
    [PMID:30366902]