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.003G185000.3
Common NameB456_003G185000, LOC105789379
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: 765aa    MW: 85548.5 Da    PI: 5.6095
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.003G185000.3genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox67.91.3e-2177132156
                         TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
            Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                         +++ +++t++q++eLe++F+ +++p+ ++r +L+++lgL+ rqVk+WFqNrR+++k
  Gorai.003G185000.3  77 KKRYHRHTAHQIQELEAVFKDCPHPDDKQRMKLSQELGLKPRQVKFWFQNRRTQMK 132
                         688999***********************************************998 PP
2START146.23.2e-462654912206
                         HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS..............SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S.. CS
               START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskv.............dsgealrasgvvdmvlallveellddkeqWdetla.. 77 
                         la +a++elvk+   +ep+Wv+    e+g+evl   e s+              +++ea+r+s vv+m++ +lv  ++d   +W e ++  
  Gorai.003G185000.3 265 LAMSATDELVKMCRTNEPLWVRNN--ETGKEVLNLDEHSRMfhwplnlkqrsseFRTEASRDSSVVIMNSITLVDAFVDAH-KWMELFPsi 352
                         678899****************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.003G185000.3 353 vaRAKCVQVISQGvsgtnGCLQLMYAELHMLSPLVPtREAYFLRYCQQqnvEDETYWAIVDFPLDGFHNSL-QTSFPLYKRRPSGCLILDM 442
                         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.003G185000.3 443 PNGYSRVTWVEHAEIEEKPIHQIFSHFVHSGMAFGANRWLAVLERQCER 491
                         ***********************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466898.77E-2069135IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.608.7E-2273140IPR009057Homeodomain-like
PROSITE profilePS5007117.21674134IPR001356Homeobox domain
SMARTSM003891.2E-2076138IPR001356Homeobox domain
CDDcd000865.38E-2077135No hitNo description
PfamPF000464.8E-1977132IPR001356Homeobox domain
PROSITE patternPS000270109132IPR017970Homeobox, conserved site
PROSITE profilePS5084841.707255494IPR002913START domain
SuperFamilySSF559611.65E-29256493No hitNo description
CDDcd088751.79E-111259490No hitNo description
SMARTSM002343.6E-31264491IPR002913START domain
PfamPF018527.0E-39265491IPR002913START domain
SuperFamilySSF559615.4E-16509743No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 765 aa     Download sequence    Send to blast
MYGDCEAISS MGGNMVVSSE TLFTSTFQNP NFTYLPLEPL PPMITKEENG SLLRGKEEMK  60
SGSESELQET TEQPLKKKRY HRHTAHQIQE LEAVFKDCPH PDDKQRMKLS QELGLKPRQV  120
KFWFQNRRTQ MKAQQDRSEN VILRAENDSL KSEFYRLQAE LSKLVCPNCG GPPVPGGVSF  180
DELRIENARL GEELERVCAI ASRYIGRPIQ TMGELMPPSL ELDMNIYPRQ FLEPMPPPIL  240
SETPSYLDNN NLILMEEEKT IAMELAMSAT DELVKMCRTN EPLWVRNNET GKEVLNLDEH  300
SRMFHWPLNL KQRSSEFRTE ASRDSSVVIM NSITLVDAFV DAHKWMELFP SIVARAKCVQ  360
VISQGVSGTN GCLQLMYAEL HMLSPLVPTR EAYFLRYCQQ QNVEDETYWA IVDFPLDGFH  420
NSLQTSFPLY KRRPSGCLIL DMPNGYSRVT WVEHAEIEEK PIHQIFSHFV HSGMAFGANR  480
WLAVLERQCE RVASLMATNI PDIGVIPSPE ARKNLMRLSQ RMIRTFCVNI SSCSGQVWTA  540
VPDSTDDTVR ITTRKVSEAG QPNGLILCAV STTWLPYPHH DVFDLLRDER RRAQLEVLSN  600
GNALHEVAHI ANGSHPGNCI SLLRINVSSN SSQHVDLMLQ ESCTNKSGSL VVYSTVDVDS  660
VQLAMSGEDP SCIPLLPLGF FITPMELVND GGCKDEANGH NITAGSLLTV GLQVLASTIP  720
SAKINLSSIA AINNHLCTTV QQISSALSSN CIGSCNEGDN GKEK*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gra.22600.0flower| flowering
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO488217410.0
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
GenBankAF5309140.0AF530914.1 Gossypium hirsutum homeodomain protein GhHOX2 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012472200.10.0PREDICTED: homeobox-leucine zipper protein HDG5-like isoform X1
SwissprotQ9FJS20.0HDG5_ARATH; Homeobox-leucine zipper protein HDG5
TrEMBLA0A0D2RPW20.0A0A0D2RPW2_GOSRA; Uncharacterized protein
STRINGGorai.003G185000.10.0(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G46880.10.0homeobox-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]