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 Ciclev10033524m
Common NameCICLE_v10033524mg
Organism
Citrus clementina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family TALE
Protein Properties Length: 132aa    MW: 15247 Da    PI: 7.0928
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10033524mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox31.82.4e-10741082155
                      HSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
         Homeobox  21 knrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                      k +yp+++++ +LA+++gL+++q+ +WF N+R ++
  Ciclev10033524m  74 KWPYPTEADKLQLAESTGLDQKQINNWFINQRKRH 108
                      569*****************************985 PP
2ELK30.48.7e-112949222
              ELK  2 LKhqLlrKYsgyLgsLkqEFs 22
                     LK+ LlrK+++++gsLk EFs
  Ciclev10033524m 29 LKDKLLRKFGSHIGSLKLEFS 49
                     9*******************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM011883.0E-52849IPR005539ELK domain
PROSITE profilePS512139.1142848IPR005539ELK domain
PfamPF037896.8E-82949IPR005539ELK domain
PROSITE profilePS5007113.18348111IPR001356Homeobox domain
SuperFamilySSF466893.68E-2149124IPR009057Homeodomain-like
SMARTSM003893.5E-1350115IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.603.8E-2953112IPR009057Homeodomain-like
CDDcd000862.21E-1260112No hitNo description
PfamPF059206.3E-1968107IPR008422Homeobox KN domain
PROSITE patternPS00027086109IPR017970Homeobox, 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: 132 aa     Download sequence    Send to blast
DGAASSDEEY SGAETEAQDA EARDEDRHLK DKLLRKFGSH IGSLKLEFSK KKKKGKLPKE  60
SRQTLLDWWN AHYKWPYPTE ADKLQLAEST GLDQKQINNW FINQRKRHWK PSENMHFAVM  120
DNLSGPLFTD D*
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006483907.12e-92homeobox protein knotted-1-like 6 isoform X1
RefseqXP_024956251.12e-92homeobox protein knotted-1-like 6 isoform X2
SwissprotQ84JS62e-61KNAT6_ARATH; Homeobox protein knotted-1-like 6
TrEMBLA0A067H4472e-91A0A067H447_CITSI; Uncharacterized protein
TrEMBLA0A2H5N9L06e-91A0A2H5N9L0_CITUN; Uncharacterized protein
TrEMBLV4SUK51e-91V4SUK5_9ROSI; Uncharacterized protein (Fragment)
STRINGXP_006483907.18e-92(Citrus sinensis)
STRINGXP_006438318.12e-92(Citrus clementina)
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
AT1G23380.15e-54KNOTTED1-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. 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]