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.005G180500.2
Common NameB456_005G180500
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: 313aa    MW: 35196.8 Da    PI: 4.8801
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.005G180500.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox28.42.8e-092552892155
                         HSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
            Homeobox  21 knrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                         k +yp+++++  LA+++gL+++q+ +WF N+R ++
  Gorai.005G180500.2 255 KWPYPTEADKLALAESTGLDQKQINNWFINQRKRH 289
                         679*****************************885 PP
2ELK26.21.9e-09210230222
                 ELK   2 LKhqLlrKYsgyLgsLkqEFs 22 
                         LK++Llr ++++++sLk EFs
  Gorai.005G180500.2 210 LKDRLLRRFGSHISSLKLEFS 230
                         9*******************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012551.3E-2373117IPR005540KNOX1
PfamPF037907.1E-2375116IPR005540KNOX1
SMARTSM012563.2E-26123174IPR005541KNOX2
PfamPF037913.8E-25127173IPR005541KNOX2
PROSITE profilePS512138.748209229IPR005539ELK domain
SMARTSM011882.1E-4209230IPR005539ELK domain
PfamPF037898.5E-7210230IPR005539ELK domain
PROSITE profilePS5007112.795229292IPR001356Homeobox domain
SuperFamilySSF466893.98E-19230303IPR009057Homeodomain-like
SMARTSM003894.0E-13231296IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.9E-27234293IPR009057Homeodomain-like
CDDcd000868.19E-13238293No hitNo description
PfamPF059204.6E-17249288IPR008422Homeobox KN domain
PROSITE patternPS000270267290IPR017970Homeobox, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010073Biological Processmeristem maintenance
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 313 aa     Download sequence    Send to blast
MDEMYGFNAT GEYADKALMS PENLILPSDY HAWLCSSGRV PMFGPDELIS AASAISEAAS  60
IAPEIRREED MSCVIKAKIA SHPSYPRLLQ AYIDCQKVGA PPEIASLLDE ILRENDVNRR  120
DIVPTCLGAD PELDEFMETY CDMLVKFKSD LSRPFDEATT FLNKIEMQLR NLCTGASIRG  180
PSGGVSSDED ISGGEVEGQE GQGKSEDRGL KDRLLRRFGS HISSLKLEFS KKKKKGKLPR  240
EARQTLLEWW NVHYKWPYPT EADKLALAES TGLDQKQINN WFINQRKRHW KPSESMQFAV  300
MDNLSGQFFS ED*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: First detected in torpedo stage embryos at the boundaries between the presumptive SAM and the cotyledons. Later expressed between the cotyledons and the meristem, and between the cotyledons. In seedlings, localised in stipules and at the boundaries between the SAM and the emerging primordia. Expressed at the site of lateral roots. {ECO:0000269|PubMed:16798887}.
UniprotTISSUE SPECIFICITY: Expressed predominantly in shoot apices of seedlings, and, to a lower extent, in rosette leaves. {ECO:0000269|PubMed:11311158}.
Functional Description ? help Back to Top
Source Description
UniProtPlays a role in meristem function. Contributes to the shoot apical meristem (SAM) maintenance and organ separation by controlling boundary establishment in embryo in a CUC1, CUC2 and STM-dependent manner. Involved in maintaining cells in an undifferentiated, meristematic state. Probably binds to the DNA sequence 5'-TGAC-3'. {ECO:0000269|PubMed:16798887}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Seems to be repressed by AS2 and AS1 but induced by STM, CUC1 and CUC2. {ECO:0000269|PubMed:11311158, ECO:0000269|PubMed:16798887}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX5837051e-67JX583705.1 Gossypium hirsutum clone NBRI_GE16819 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012479359.10.0PREDICTED: homeobox protein knotted-1-like 6
SwissprotQ84JS61e-157KNAT6_ARATH; Homeobox protein knotted-1-like 6
TrEMBLA0A0D2NER20.0A0A0D2NER2_GOSRA; Uncharacterized protein
STRINGGorai.005G180500.10.0(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G23380.11e-135KNOTTED1-like homeobox gene 6
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. Khan M, et al.
    Repression of Lateral Organ Boundary Genes by PENNYWISE and POUND-FOOLISH Is Essential for Meristem Maintenance and Flowering in Arabidopsis.
    Plant Physiol., 2015. 169(3): p. 2166-86
    [PMID:26417006]