PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Ciclev10002471m
Common NameCICLE_v10002471mg
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 MIKC_MADS
Protein Properties Length: 212aa    MW: 24829.2 Da    PI: 8.6355
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10002471mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF892.4e-28959151
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     krien snrqvt+skRrngilKKA+E+ vLCda+v++ii++s+gk+++y+s
  Ciclev10002471m  9 KRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCS 59
                     79***********************************************96 PP
2K-box79.67.7e-2771167197
            K-box   1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 
                      y+++sg++l++ k+e+l++e++++k+e++ +q ++Rhl Ged++sL+ keL  Le++Le++l +iR+k++e + ++ ++ +++e+e++  +  L
  Ciclev10002471m  71 YHRQSGRRLWDPKHENLSNEIERIKRENDRMQIKLRHLNGEDISSLNPKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVL 164
                      78899999****************************************************************9999999999999999999999 PP

            K-box  95 rkk 97 
                      r++
  Ciclev10002471m 165 RQQ 167
                      887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.5E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.847161IPR002100Transcription factor, MADS-box
CDDcd002651.03E-38280No hitNo description
SuperFamilySSF554551.96E-34295IPR002100Transcription factor, MADS-box
PRINTSPR004048.1E-28323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.6E-211057IPR002100Transcription factor, MADS-box
PRINTSPR004048.1E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004048.1E-283859IPR002100Transcription factor, MADS-box
PfamPF014861.7E-1883162IPR002487Transcription factor, K-box
PROSITE profilePS5129714.0584170IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010093Biological Processspecification of floral organ identity
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 212 aa     Download sequence    Send to blast
MGRGKIEIKR IENASNRQVT YSKRRNGILK KAKEITVLCD AKVSLIIYAS SGKMHDYCSP  60
STSLVDILEQ YHRQSGRRLW DPKHENLSNE IERIKRENDR MQIKLRHLNG EDISSLNPKE  120
LIALEDALEN GLVSIRDKQS EKMETMRKNG KMMEEEHNYL KFVLRQQEIA RQQQELAMEN  180
SVSAEIDYQR ENHHDYAYHV QPIQPNLQER I*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6bz1_A4e-171100194MEF2 CHIMERA
6bz1_B4e-171100194MEF2 CHIMERA
6bz1_C4e-171100194MEF2 CHIMERA
6bz1_D4e-171100194MEF2 CHIMERA
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed during flower development in stamens and petals. {ECO:0000269|PubMed:17920788, ECO:0000269|Ref.1}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that may play role in specifying stamen and petal organ identity. {ECO:0000269|PubMed:23181568, ECO:0000269|Ref.1, ECO:0000305|PubMed:17920788}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00080ChIP-seqTransfer from AT5G20240Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006434291.11e-155floral homeotic protein PMADS 2 isoform X1
SwissprotQ0HA251e-93MADS9_VITVI; Agamous-like MADS-box protein MADS9
TrEMBLV4TCY61e-154V4TCY6_9ROSI; Uncharacterized protein
STRINGXP_006434291.11e-154(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM53002751
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G20240.15e-87MIKC_MADS family protein
Publications ? help Back to Top
  1. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  2. Díaz-Riquelme J,Lijavetzky D,Martínez-Zapater JM,Carmona MJ
    Genome-wide analysis of MIKCC-type MADS box genes in grapevine.
    Plant Physiol., 2009. 149(1): p. 354-69
    [PMID:18997115]
  3. Grimplet J,Martínez-Zapater JM,Carmona MJ
    Structural and functional annotation of the MADS-box transcription factor family in grapevine.
    BMC Genomics, 2016. 17: p. 80
    [PMID:26818751]