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.008G233200.2
Common NameB456_008G233200
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: 234aa    MW: 26392.7 Da    PI: 8.3927
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.008G233200.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox59.26.6e-1969123256
                         T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
            Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                         rk+ +++k+q  +Lee F+++++++ +++  LAk+lgL  rqV vWFqNrRa+ k
  Gorai.008G233200.2  69 RKKLRLSKDQSAILEENFKEHNTLNPKQKLALAKQLGLRPRQVEVWFQNRRARTK 123
                         788899***********************************************98 PP
2HD-ZIP_I/II129.21.7e-4169158191
         HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 
                         +kk+rlsk+q+++LEe+F+e+++L+p++K +la++Lgl+prqv+vWFqnrRARtk+kq+E+d+e+Lkr++++l+een+rL+kev+eLr +l
  Gorai.008G233200.2  69 RKKLRLSKDQSAILEENFKEHNTLNPKQKLALAKQLGLRPRQVEVWFQNRRARTKLKQTEVDCEFLKRCCENLTEENRRLQKEVQELR-AL 158
                         69*************************************************************************************9.55 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046184.1E-16343IPR006712HD-ZIP protein, N-terminal
SuperFamilySSF466897.27E-1957126IPR009057Homeodomain-like
PROSITE profilePS5007117.32965125IPR001356Homeobox domain
SMARTSM003891.1E-1567129IPR001356Homeobox domain
CDDcd000863.09E-1569126No hitNo description
PfamPF000462.2E-1669123IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.606.4E-1874121IPR009057Homeodomain-like
PRINTSPR000311.4E-596105IPR000047Helix-turn-helix motif
PROSITE patternPS000270100123IPR017970Homeobox, conserved site
PRINTSPR000311.4E-5105121IPR000047Helix-turn-helix motif
Gene3DG3DSA:1.20.5.1709.8E-4122161No hitNo description
PfamPF021831.6E-11125159IPR003106Leucine zipper, homeobox-associated
SMARTSM003401.6E-24125169IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 234 aa     Download sequence    Send to blast
MGSIFRGIDM NILPSTVDCE EEAGVSSPNS TISSVSGKRS EREGNGDELE IEKSSSRGIS  60
DEEDGDTSRK KLRLSKDQSA ILEENFKEHN TLNPKQKLAL AKQLGLRPRQ VEVWFQNRRA  120
RTKLKQTEVD CEFLKRCCEN LTEENRRLQK EVQELRALKL SSTQFYMQMT PPTTLTMCTS  180
CERVAVPPNP PSSATVDPRS HHQLAQTHHR AFHMNPWAPS AAHRPLDALR PRS*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
16773SRKKLRL
2117125RRARTKLKQ
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Predominantly expressed in leaves and stems. {ECO:0000269|PubMed:8106086}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the negative regulation of cell elongation and specific cell proliferation processes such as lateral root formation and secondary growth of the vascular system. Acts as mediator of the red/far-red light effects on leaf cell expansion in the shading response. Binds to the DNA sequence 5'-CAAT[GC]ATTG-3'. Negatively regulates its own expression. {ECO:0000269|PubMed:10477292, ECO:0000269|PubMed:11260495, ECO:0000269|PubMed:8449400}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Rapidly and strongly induced by lowering the ratio of red to far-red light. {ECO:0000269|PubMed:8106086}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016736920.11e-173PREDICTED: homeobox-leucine zipper protein HAT4-like
SwissprotQ054664e-95HAT4_ARATH; Homeobox-leucine zipper protein HAT4
TrEMBLA0A0D2TBC71e-173A0A0D2TBC7_GOSRA; Uncharacterized protein
TrEMBLA0A1U8ND261e-172A0A1U8ND26_GOSHI; homeobox-leucine zipper protein HAT4-like
TrEMBLA0A2P5QQH31e-172A0A2P5QQH3_GOSBA; Uncharacterized protein
STRINGGorai.008G233200.11e-172(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G16780.12e-89homeobox protein 2
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. Carabelli M,Turchi L,Ruzza V,Morelli G,Ruberti I
    Homeodomain-Leucine Zipper II family of transcription factors to the limelight: central regulators of plant development.
    Plant Signal Behav, 2014.
    [PMID:23838958]
  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. Francisco M, et al.
    Genome Wide Association Mapping in Arabidopsis thaliana Identifies Novel Genes Involved in Linking Allyl Glucosinolate to Altered Biomass and Defense.
    Front Plant Sci, 2016. 7: p. 1010
    [PMID:27462337]
  5. Müller-Moulé P, et al.
    YUCCA auxin biosynthetic genes are required for Arabidopsis shade avoidance.
    PeerJ, 2016. 4: p. e2574
    [PMID:27761349]
  6. Ivarson E, et al.
    Effects of Overexpression of WRI1 and Hemoglobin Genes on the Seed Oil Content of Lepidium campestre.
    Front Plant Sci, 2016. 7: p. 2032
    [PMID:28119714]
  7. Kasulin L, et al.
    A single haplotype hyposensitive to light and requiring strong vernalization dominates Arabidopsis thaliana populations in Patagonia, Argentina.
    Mol. Ecol., 2017. 26(13): p. 3389-3404
    [PMID:28316114]
  8. Singh M,Gupta A,Singh D,Khurana JP,Laxmi A
    Arabidopsis RSS1 Mediates Cross-Talk Between Glucose and Light Signaling During Hypocotyl Elongation Growth.
    Sci Rep, 2017. 7(1): p. 16101
    [PMID:29170398]