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 Ciclev10032490m
Common NameCICLE_v10032490mg
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: 261aa    MW: 30018.3 Da    PI: 8.8908
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10032490mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF96.89.3e-31959151
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     krienk+nrqvtfskRr+g lKKA+E+SvLCdaevaviifs++gkl+eys+
  Ciclev10032490m  9 KRIENKINRQVTFSKRRAGFLKKAHEISVLCDAEVAVIIFSHKGKLFEYST 59
                     79***********************************************96 PP
2K-box77.34.1e-2612719136100
            K-box  36 RhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                      Rh+lGedLesLslk++qqLeqqL+++lk+iRs+Kn+l+ e+i+elqkkek+++e+n+ L k+++e
  Ciclev10032490m 127 RHYLGEDLESLSLKDIQQLEQQLDTALKHIRSRKNQLMQESISELQKKEKSIEEQNNLLVKQIKE 191
                      9*************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.763161IPR002100Transcription factor, MADS-box
SMARTSM004322.7E-39160IPR002100Transcription factor, MADS-box
CDDcd002657.64E-41279No hitNo description
SuperFamilySSF554551.14E-33291IPR002100Transcription factor, MADS-box
PRINTSPR004047.5E-30323IPR002100Transcription factor, MADS-box
PfamPF003197.3E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004047.5E-302338IPR002100Transcription factor, MADS-box
PRINTSPR004047.5E-303859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129715.66288195IPR002487Transcription factor, K-box
PfamPF014863.4E-21127189IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009933Biological Processmeristem structural organization
GO:0010076Biological Processmaintenance of floral meristem identity
GO:0010582Biological Processfloral meristem determinacy
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 261 aa     Download sequence    Send to blast
MGRGRVQLKR IENKINRQVT FSKRRAGFLK KAHEISVLCD AEVAVIIFSH KGKLFEYSTD  60
SCMEKILERY ERYAYAERQL IAPDPESQRN WPLECNNLKA KIDLLQKNQR CSSKSTFYTG  120
SQIDLFRHYL GEDLESLSLK DIQQLEQQLD TALKHIRSRK NQLMQESISE LQKKEKSIEE  180
QNNLLVKQIK EREKAAAQQA QWGNQIQNQV PNTLSFLLPQ PPPCLRLGGA YQEQASEMRR  240
NELNLTLEPV CSCSLGCFAG *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-20173172MEF2C
5f28_B2e-20173172MEF2C
5f28_C2e-20173172MEF2C
5f28_D2e-20173172MEF2C
6byy_A2e-20174173MEF2 CHIMERA
6byy_B2e-20174173MEF2 CHIMERA
6byy_C2e-20174173MEF2 CHIMERA
6byy_D2e-20174173MEF2 CHIMERA
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in tendrils and flowers. {ECO:0000269|PubMed:15247405}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in flower development. {ECO:0000250|UniProtKB:Q0HA25}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00096ChIP-seqTransfer from AT1G69120Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY3389740.0AY338974.1 Citrus sinensis APETALA1 (AP1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006437876.11e-175truncated transcription factor CAULIFLOWER A
RefseqXP_024956095.11e-175APETALA1 isoform X1
SwissprotQ6E6S71e-126AP1_VITVI; Agamous-like MADS-box protein AP1
TrEMBLA0A2H5NVT50.0A0A2H5NVT5_CITUN; Uncharacterized protein
TrEMBLV4TCU70.0V4TCU7_9ROSI; Uncharacterized protein
STRINGXP_006437877.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM79225110
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G69120.11e-114MIKC_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]