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 orange1.1g045160m
Common NameCISIN_1g045160mg
Organism
Citrus sinensis
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: 167aa    MW: 19283.8 Da    PI: 7.0588
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
orange1.1g045160mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox31.23.8e-101091432155
                        HSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
           Homeobox  21 knrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                        k +yp+++++ +LA+++gL+++q+ +WF N+R ++
  orange1.1g045160m 109 KWPYPTEADKLQLAESTGLDQKQINNWFINQRKRH 143
                        569*****************************985 PP
2ELK29.91.2e-106484222
                ELK  2 LKhqLlrKYsgyLgsLkqEFs 22
                       LK+ LlrK+++++gsLk EFs
  orange1.1g045160m 64 LKDKLLRKFGSHIGSLKLEFS 84
                       9*******************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS512139.1146383IPR005539ELK domain
SMARTSM011883.0E-56384IPR005539ELK domain
PfamPF037899.7E-86484IPR005539ELK domain
PROSITE profilePS5007113.18383146IPR001356Homeobox domain
SuperFamilySSF466896.84E-2184159IPR009057Homeodomain-like
SMARTSM003893.5E-1385150IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.606.6E-2988147IPR009057Homeodomain-like
CDDcd000867.76E-1395147No hitNo description
PfamPF059209.8E-19103142IPR008422Homeobox KN domain
PROSITE patternPS000270121144IPR017970Homeobox, 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: 167 aa     Download sequence    Send to blast
MMCLYLPFAA WLSFFFEFII NPSEGCTGLK FSNTKDGAAS SDEEYSGAET EAQDAEARDE  60
DRHLKDKLLR KFGSHIGSLK LEFSKKKKKG KLPKESRQTL LDWWNAHYKW PYPTEADKLQ  120
LAESTGLDQK QINNWFINQR KRHWKPSENM HFAVMDNLSG PLFTDD*
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_006483907.15e-83homeobox protein knotted-1-like 6 isoform X1
RefseqXP_024956251.15e-83homeobox protein knotted-1-like 6 isoform X2
SwissprotQ84JS61e-62KNAT6_ARATH; Homeobox protein knotted-1-like 6
TrEMBLA0A067H4471e-120A0A067H447_CITSI; Uncharacterized protein
STRINGXP_006438318.15e-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
AT1G23380.23e-55KNOTTED1-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]