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.008G296800.1
Common NameB456_008G296800, LOC105765742
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: 304aa    MW: 34206.5 Da    PI: 5.6659
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.008G296800.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox26.98.1e-092472802255
                         SSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
            Homeobox  22 nrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                          +yp+++++  LA+ +gL+++q+ +WF N+R ++
  Gorai.008G296800.1 247 WPYPTEADKVGLAEATGLDQKQINNWFINQRKRH 280
                         69*****************************885 PP
2ELK28.92.5e-10201221222
                 ELK   2 LKhqLlrKYsgyLgsLkqEFs 22 
                         LK+ Ll KYsgy+++Lk+EFs
  Gorai.008G296800.1 201 LKDKLLEKYSGYISTLKHEFS 221
                         9*******************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012552.8E-1576120IPR005540KNOX1
PfamPF037902.3E-1778115IPR005540KNOX1
SMARTSM012565.3E-22125176IPR005541KNOX2
PfamPF037913.4E-22129175IPR005541KNOX2
PfamPF037891.9E-9200221IPR005539ELK domain
SMARTSM011882.2E-6200221IPR005539ELK domain
PROSITE profilePS512139.987200220IPR005539ELK domain
PROSITE profilePS5007111.742220283IPR001356Homeobox domain
SMARTSM003892.6E-10222287IPR001356Homeobox domain
SuperFamilySSF466892.44E-18222296IPR009057Homeodomain-like
CDDcd000862.33E-13224284No hitNo description
Gene3DG3DSA:1.10.10.609.1E-27225284IPR009057Homeodomain-like
PfamPF059208.8E-17240279IPR008422Homeobox KN domain
PROSITE patternPS000270258281IPR017970Homeobox, 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: 304 aa     Download sequence    Send to blast
MEEHYGYHSS VVYPMETTQP ENVLSYLPVV NYSTQPPAFE EHVFGLSGSS PGISDADSVI  60
AEIPRAGFED DRVSSTDIRA KIASHPLYPK LLQAHIDCHK LGTPPGIATM LDETGGADER  120
GLDLVPCSVD ADPQLDHFME TYCEMLVKFK SDLSKPFDEA TTFLDNIQMQ LSHLCNGSSE  180
EDLSGGEMVP HGYHKNGDPQ LKDKLLEKYS GYISTLKHEF SKHKKKGKLP RDARQILLHW  240
WDLHYKWPYP TEADKVGLAE ATGLDQKQIN NWFINQRKRH WKPSGNMQIA IMDNLYGPFS  300
MNV*
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
GenBankHQ6501061e-164HQ650106.1 Gossypium hirsutum clone BAC 067L14, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012440439.10.0PREDICTED: homeobox protein knotted-1-like 6 isoform X1
SwissprotQ84JS62e-97KNAT6_ARATH; Homeobox protein knotted-1-like 6
TrEMBLA0A0D2TF870.0A0A0D2TF87_GOSRA; Uncharacterized protein
STRINGGorai.008G296800.10.0(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
AT1G23380.14e-96KNOTTED1-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]