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.003G184900.3
Common NameB456_003G184900
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: 658aa    MW: 73344.7 Da    PI: 5.8458
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.003G184900.3genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox31.53.1e-102263256
                        HHHHHCTS-HHHHHHHHHHHHHHHH CS
            Homeobox 32 eLAkklgLterqVkvWFqNrRakek 56
                        +L+++lgL+ rqVk+WFqNrR+++k
  Gorai.003G184900.3  2 KLSQELGLKPRQVKFWFQNRRTQMK 26
                        79********************998 PP
2START147.11.6e-461583842206
                         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.003G184900.3 158 LAMSATDEVAKMCRTNEPLWVRNN--ETGKEVLNLDEHSRMfhwplnlkqrsseFRTEASRDSSVVIMNSITLVDAFVDAN-KWMELFPsi 245
                         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.003G184900.3 246 vaRAKCVQVISQGvsgtnGCLQLMYAELHVLSPLVPtREAYFLRYCQQqnvEDETYWAIVDFPLDGFHNSL-QTSFPLYKRRPSGCLIQDM 335
                         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.003G184900.3 336 PNGYSRVTWVEHAEIEEKPIHQIFSHFVHSGMAFGANRWLAVLERQCER 384
                         ***********************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007112.244128IPR001356Homeobox domain
SuperFamilySSF466896.42E-8229IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.602.0E-9234IPR009057Homeodomain-like
CDDcd000861.02E-7229No hitNo description
PfamPF000461.4E-7226IPR001356Homeobox domain
PROSITE patternPS000270326IPR017970Homeobox, conserved site
PROSITE profilePS5084842.442148387IPR002913START domain
SuperFamilySSF559613.06E-30149386No hitNo description
CDDcd088753.32E-113152383No hitNo description
SMARTSM002341.3E-30157384IPR002913START domain
PfamPF018522.6E-39158384IPR002913START domain
SuperFamilySSF559616.14E-17402636No hitNo description
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: 658 aa     Download sequence    Send to blast
MKLSQELGLK PRQVKFWFQN RRTQMKAQQD RSENVILRAE NESLKSEFYR LQAELSKLVC  60
PNCGGPPVPG GVSFDELRIE NARLGEELER VCAIASRYIG RPIQTMGALM PPSLELDMNI  120
YPRQFLEPMP PTLSETPSYP DNNNLILMEE EKTIAMELAM SATDEVAKMC RTNEPLWVRN  180
NETGKEVLNL DEHSRMFHWP LNLKQRSSEF RTEASRDSSV VIMNSITLVD AFVDANKWME  240
LFPSIVARAK CVQVISQGVS GTNGCLQLMY AELHVLSPLV PTREAYFLRY CQQQNVEDET  300
YWAIVDFPLD GFHNSLQTSF PLYKRRPSGC LIQDMPNGYS RVTWVEHAEI EEKPIHQIFS  360
HFVHSGMAFG ANRWLAVLER QCERIASLMA TNIPDIGVIP SPEARKNLMR LSQRMIRTFC  420
VNISSCSGQV WTAVPDSSDD TVRITTRKVS EAGQPNGLIL CAVSTTWLPY PHHHVFDLLR  480
DERRRAQLEV LSNGNALHEV AHIANGSHPG NCISLLRINV ASNSSQHVDL MLQESCTDKS  540
GSLVVYSTVD VDSVQLAMSG EDPSCIPLLP LGFFITPMEL MNDGGCKDEA NGHNITTGSL  600
LTVGLQVLAS TIPSAKINLS SIAAINNHLC TTVQQISSAL SSNCIGYCND GDNGKEK*
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
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
TrEMBLA0A0D2P3G30.0A0A0D2P3G3_GOSRA; Uncharacterized protein
STRINGGorai.003G184900.10.0(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]