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.003G184900.4
Common NameB456_003G184900, LOC105789378
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: 506aa    MW: 57674.8 Da    PI: 5.4036
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.003G184900.4genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox695.8e-2277132156
                         TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
            Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                         +++ +++t++q++eLe++F+++++p+ ++r +L+++lgL+ rqVk+WFqNrR+++k
  Gorai.003G184900.4  77 KKRYHRHTAHQIQELEAVFKECPHPDDKQRMKLSQELGLKPRQVKFWFQNRRTQMK 132
                         688999***********************************************998 PP
2START1488.9e-472644902206
                         HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS..............SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S.. CS
               START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskv.............dsgealrasgvvdmvlallveellddkeqWdetla.. 77 
                         la +a++e+ k+   +ep+Wv+    e+g+evl   e s+              +++ea+r+s vv+m++ +lv  ++d + +W e ++  
  Gorai.003G184900.4 264 LAMSATDEVAKMCRTNEPLWVRNN--ETGKEVLNLDEHSRMfhwplnlkqrsseFRTEASRDSSVVIMNSITLVDAFVDAN-KWMELFPsi 351
                         6778999***************99..**********99999****************************************.******999 PP

                         ..EEEEEEEECTT.....EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE....TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEE CS
               START  78 ..kaetlevissg.....galqlmvaelqalsplvp.RdfvfvRyirq...lgagdwvivdvSvdseqkppesssvvRaellpSgiliepk 157
                           +a+ ++vis+g     g lqlm+ael +lsplvp R+ +f+Ry++q   + +  w+ivd  +d   +   + s+   +++pSg+li+++
  Gorai.003G184900.4 352 vaRAKCVQVISQGvsgtnGCLQLMYAELHVLSPLVPtREAYFLRYCQQqnvEDETYWAIVDFPLDGFHNSL-QTSFPLYKRRPSGCLIQDM 441
                         99**********************************************99888888*****9999887765.78888888*********** PP

                         CTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
               START 158 snghskvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                         +ng+s+vtwveh++ +++ +h+++ ++v+sg+a+ga++w+a l+rqce+
  Gorai.003G184900.4 442 PNGYSRVTWVEHAEIEEKPIHQIFSHFVHSGMAFGANRWLAVLERQCER 490
                         ***********************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466892.09E-2069135IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.603.0E-2273140IPR009057Homeodomain-like
PROSITE profilePS5007117.36274134IPR001356Homeobox domain
SMARTSM003891.7E-2076138IPR001356Homeobox domain
CDDcd000861.91E-1977135No hitNo description
PfamPF000462.0E-1977132IPR001356Homeobox domain
PROSITE patternPS000270109132IPR017970Homeobox, conserved site
PROSITE profilePS5084842.442254493IPR002913START domain
SuperFamilySSF559612.31E-30255492No hitNo description
CDDcd088753.05E-115258489No hitNo description
SMARTSM002341.3E-30263490IPR002913START domain
PfamPF018521.5E-39264490IPR002913START domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048497Biological Processmaintenance of floral organ identity
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 506 aa     Download sequence    Send to blast
MYGDCEAISS MGGNMVVSSE TLFTSTFQNP NFTYLPLEPL PPMIPKEENG SLLRGKEEMK  60
SGSESELQET TEQPLKKKRY HRHTAHQIQE LEAVFKECPH PDDKQRMKLS QELGLKPRQV  120
KFWFQNRRTQ MKAQQDRSEN VILRAENESL KSEFYRLQAE LSKLVCPNCG GPPVPGGVSF  180
DELRIENARL GEELERVCAI ASRYIGRPIQ TMGALMPPSL ELDMNIYPRQ FLEPMPPTLS  240
ETPSYPDNNN LILMEEEKTI AMELAMSATD EVAKMCRTNE PLWVRNNETG KEVLNLDEHS  300
RMFHWPLNLK QRSSEFRTEA SRDSSVVIMN SITLVDAFVD ANKWMELFPS IVARAKCVQV  360
ISQGVSGTNG CLQLMYAELH VLSPLVPTRE AYFLRYCQQQ NVEDETYWAI VDFPLDGFHN  420
SLQTSFPLYK RRPSGCLIQD MPNGYSRVTW VEHAEIEEKP IHQIFSHFVH SGMAFGANRW  480
LAVLERQCER IASLMATNIP DIGGS*
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in shoot apical meristem (SAM) with higher levels in L1 cells and the epidermal layer of young leaves. Expressed in the L1 of apical inflorescence meristems, early flower primordia, carpel and stamen filament epidermis, ovule primordia, nucellus and chalaze. {ECO:0000269|PubMed:16778018}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY3384960.0AY338496.1 Gossypium hirsutum homeodomain protein BNLGHi6863 (bnlghi6863) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012472199.10.0PREDICTED: homeobox-leucine zipper protein HDG5-like
SwissprotQ9FJS20.0HDG5_ARATH; Homeobox-leucine zipper protein HDG5
TrEMBLA0A0D2QVF50.0A0A0D2QVF5_GOSRA; Uncharacterized protein
STRINGGorai.003G184900.10.0(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G46880.11e-173homeobox-7
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. 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]
  3. Lung SC, et al.
    Arabidopsis ACYL-COA-BINDING PROTEIN1 interacts with STEROL C4-METHYL OXIDASE1-2 to modulate gene expression of homeodomain-leucine zipper IV transcription factors.
    New Phytol., 2018. 218(1): p. 183-200
    [PMID:29288621]