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 Ciclev10026433m
Common NameCICLE_v10026433mg
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: 224aa    MW: 25761.2 Da    PI: 9.8487
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10026433mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF91.54.2e-29959151
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     krien +nrqvt+skRrngi+KKA+EL vLCda+v++i++s+tgk++ey+s
  Ciclev10026433m  9 KRIENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMVSNTGKFHEYIS 59
                     79***********************************************86 PP
2K-box87.23.2e-2971164194
            K-box   1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 
                      yqks g++l++++++++q+ ++kLk+ +++L++ +R+++GedL++L+++eL+ Leq++ +s  ++R++K +++++q+++ +kk ++l+e++ ++
  Ciclev10026433m  71 YQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKDIRQRMGEDLDDLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNI 164
                      899999***********************************************************************************99876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.0E-40160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.043161IPR002100Transcription factor, MADS-box
CDDcd002659.42E-39280No hitNo description
SuperFamilySSF554557.98E-36295IPR002100Transcription factor, MADS-box
PRINTSPR004044.3E-27323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.6E-231057IPR002100Transcription factor, MADS-box
PRINTSPR004044.3E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004044.3E-273859IPR002100Transcription factor, MADS-box
PfamPF014868.0E-2182164IPR002487Transcription factor, K-box
PROSITE profilePS5129714.76784174IPR002487Transcription 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: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: 224 aa     Download sequence    Send to blast
MGRGKIEIKR IENPTNRQVT YSKRRNGIFK KAQELTVLCD AKVSLIMVSN TGKFHEYISP  60
TTTTKKMFDQ YQKSLGVDLW STHYAKMQES YRKLKEINNK LRKDIRQRMG EDLDDLTFEE  120
LRGLEQNMSS SAATVRERKF HVIKTQTDTY KKKVRNLEER HGNILLDFET KYDDPHYGLV  180
DNGDYQSAMA LANGASNLYA FRMQQQNLHQ GTGGYGSSDL TLA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-14159159MEF2C
5f28_B2e-14159159MEF2C
5f28_C2e-14159159MEF2C
5f28_D2e-14159159MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed during flower development in stamens, petals and carpels (PubMed:17920788). Expressed in fruits and seeds (PubMed:17920788). {ECO:0000269|PubMed:17920788}.
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
MP00077ChIP-seqTransfer from AT3G54340Download
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_006425563.11e-168floral homeotic protein DEFICIENS
RefseqXP_006466888.11e-168floral homeotic protein DEFICIENS-like
SwissprotQ003J21e-131TM6_VITVI; Agamous-like MADS-box protein TM6
TrEMBLV4RVJ91e-166V4RVJ9_9ROSI; Uncharacterized protein
STRINGXP_006466888.11e-167(Citrus sinensis)
STRINGXP_006425563.11e-167(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM52612750
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G54340.12e-78MIKC_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]