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.003G035400.1
Common NameB456_003G035400
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: 99aa    MW: 11597.3 Da    PI: 9.9492
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.003G035400.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox62.37e-202073356
                        --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
            Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                        k+++++ +q+++Le+ F   +++  e++ +LA++lgL+ rqV +WFqNrRa++k
  Gorai.003G035400.1 20 KKRRLSMHQVKALEKNFDVGNKLEPERKVKLAEELGLQPRQVAIWFQNRRARWK 73
                        56689************************************************9 PP
2HD-ZIP_I/II1118e-361989171
         HD-ZIP_I/II  1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkrayd 71
                        ekkrrls +qvk+LE++F+  +kLeperKv+la+eLglqprqva+WFqnrRAR+ktk lEkdy++Lk++ +
  Gorai.003G035400.1 19 EKKRRLSMHQVKALEKNFDVGNKLEPERKVKLAEELGLQPRQVAIWFQNRRARWKTKVLEKDYAMLKANRE 89
                        69*****************************************************************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.34E-191375IPR009057Homeodomain-like
PROSITE profilePS5007117.4751575IPR001356Homeobox domain
SMARTSM003894.6E-181879IPR001356Homeobox domain
CDDcd000863.66E-142075No hitNo description
PfamPF000463.9E-172073IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.604.4E-202774IPR009057Homeodomain-like
PRINTSPR000311.8E-64655IPR000047Helix-turn-helix motif
PROSITE patternPS0002705073IPR017970Homeobox, conserved site
PRINTSPR000311.8E-65571IPR000047Helix-turn-helix motif
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 99 aa     Download sequence    Send to blast
MLDGLDEEDN LEEGGQATEK KRRLSMHQVK ALEKNFDVGN KLEPERKVKL AEELGLQPRQ  60
VAIWFQNRRA RWKTKVLEKD YAMLKANREK EPLWKSFS*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Localized primarily to the hypocotyl of germinating seedlings. {ECO:0000269|PubMed:12678559}.
UniprotTISSUE SPECIFICITY: Widely expressed. {ECO:0000269|PubMed:16055682}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that acts as a positive regulator of ABA-responsiveness, mediating the inhibitory effect of ABA on growth during seedling establishment. Binds to the DNA sequence 5'-CAATNATTG-3'. {ECO:0000269|PubMed:12678559}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by abscisic acid (ABA) and by salt stress. {ECO:0000269|PubMed:12678559, ECO:0000269|PubMed:16055682}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2431211e-156AC243121.1 Gossypium raimondii clone GR__Ba0142D21-hnv, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012477717.17e-63PREDICTED: homeobox-leucine zipper protein ATHB-6-like, partial
SwissprotP466673e-36ATHB5_ARATH; Homeobox-leucine zipper protein ATHB-5
TrEMBLA0A0D2NVT74e-64A0A0D2NVT7_GOSRA; Uncharacterized protein
STRINGGorai.003G035400.16e-65(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM54528143
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G65310.21e-36homeobox protein 5
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. Cassan-Wang H, et al.
    Identification of novel transcription factors regulating secondary cell wall formation in Arabidopsis.
    Front Plant Sci, 2013. 4: p. 189
    [PMID:23781226]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. Song L, et al.
    A transcription factor hierarchy defines an environmental stress response network.
    Science, 2017.
    [PMID:27811239]
  5. Stamm P, et al.
    The Transcription Factor ATHB5 Affects GA-Mediated Plasticity in Hypocotyl Cell Growth during Seed Germination.
    Plant Physiol., 2017. 173(1): p. 907-917
    [PMID:27872245]