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.004G236400.1
Common NameB456_004G236400, LOC105792467
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 TALE
Protein Properties Length: 290aa    MW: 33046 Da    PI: 5.9292
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.004G236400.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox26.79.8e-092332652355
                         SS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
            Homeobox  23 rypsaeereeLAkklgLterqVkvWFqNrRake 55 
                         +yp++ee+ +L++ +gL+++q+ +WF N+R ++
  Gorai.004G236400.1 233 PYPTEEEKLKLSEITGLDQKQINNWFINQRKRH 265
                         8*****************************885 PP
2ELK35.81.7e-12185206122
                 ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                         ++K +L+rKYsgyL++L++EF+
  Gorai.004G236400.1 185 DIKGMLMRKYSGYLCNLRKEFL 206
                         58*******************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012552.3E-195599IPR005540KNOX1
PfamPF037907.7E-195798IPR005540KNOX1
SMARTSM012561.8E-25103154IPR005541KNOX2
PfamPF037913.7E-25106153IPR005541KNOX2
PfamPF037894.8E-8185206IPR005539ELK domain
PROSITE profilePS5121310.057185205IPR005539ELK domain
SMARTSM011882.9E-5185206IPR005539ELK domain
PROSITE profilePS5007112.325205268IPR001356Homeobox domain
SMARTSM003893.9E-13207272IPR001356Homeobox domain
SuperFamilySSF466892.87E-19207277IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.608.4E-27210270IPR009057Homeodomain-like
CDDcd000866.26E-13217269No hitNo description
PfamPF059201.1E-16225264IPR008422Homeobox KN domain
PROSITE patternPS000270243266IPR017970Homeobox, conserved site
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: 290 aa     Download sequence    Send to blast
MEDLYRLDDR TVSSSNDSAR VNNNLAAAVT TTGFHSPVHH LLQFDHQAAD TDMYDVIKNQ  60
IANHPRYPDL VSAHIECRKV GAPPELGSLL EEIGRENHHP TSGCSEIGAD PELDDFMESY  120
CQVLHKYKEE LSKPFDEATT FLSNIESQLS TLCKGAVTKT LDYGSDEACE SSGWEAEAYE  180
SGQEDIKGML MRKYSGYLCN LRKEFLKKRK KGKLPKDARM VLLHWWNNHY RWPYPTEEEK  240
LKLSEITGLD QKQINNWFIN QRKRHWKPSE DMKFALMEGF AGNINGGPT*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1200209LRKEFLKKRK
2206210KKRKK
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Highly expressed in the early globular stage embryo before 2 days after pollination (DAP), but not in the endosperm. At 3 and 4 DAP, expression is restricted to the region around or just below the center of the ventral side of the embryo, where the shoot apex subsequently arises. During the transition to the shoot apex differentiation stage, expression is divided between the upper and basal regions of the shoot area, and the notch between the first leaf primordium and epiblast, respectively. When the first leaf primordia is evident, expression is localized to the notches between the shoot apical meristem (SAM) and the first leaf primordium and the putative second leaf primordium. Expressed uniformly in the inflorescence meristem, but after the transition from inflorescence to the floral phase, located specifically in the notches between the floral meristem and glume primordia. At later stages of flower development, uniformly expressed throughout the corpus of the meristem, and in the notches between glume primordia, but less well defined than in the previous stage. {ECO:0000269|PubMed:10488233}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that may be involved in shoot formation during early embryogenesis. {ECO:0000269|PubMed:10488233}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX5831689e-65JX583168.1 Gossypium hirsutum clone NBRI_GE16149 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012476512.10.0PREDICTED: homeobox protein knotted-1-like 10
SwissprotQ9FP291e-91KNOS1_ORYSJ; Homeobox protein knotted-1-like 1
TrEMBLA0A0D2PH790.0A0A0D2PH79_GOSRA; Uncharacterized protein
STRINGGorai.004G236400.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM8352785
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G23380.11e-75KNOTTED1-like homeobox gene 6
Publications ? help Back to Top
  1. Park SH, et al.
    A Ds-insertion mutant of OSH6 (Oryza sativa Homeobox 6) exhibits outgrowth of vestigial leaf-like structures, bracts, in rice.
    Planta, 2007. 227(1): p. 1-12
    [PMID:17624547]
  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]