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 orange1.1g028961m
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 MIKC_MADS
Protein Properties Length: 202aa    MW: 22901.7 Da    PI: 8.0521
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
orange1.1g028961mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF80.11.5e-25958150
                       S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
             SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                       krien   rqvtf+kRr+g+lKKA+ELS+LCda+v v ifs++gklye +
  orange1.1g028961m  9 KRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELA 58
                       79*********************************************965 PP
2K-box59.61.3e-20821739100
              K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                        + +++    + e++ Lk+eie Lq+ +R + G + ++++l eL  Le++Le  + +iRs+K+++++++i+ l++ke  l  +nk+L+ k+ee
  orange1.1g028961m  82 VMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173
                        55666677899******************************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006629.422161IPR002100Transcription factor, MADS-box
SuperFamilySSF554557.59E-28175IPR002100Transcription factor, MADS-box
SMARTSM004321.8E-35160IPR002100Transcription factor, MADS-box
CDDcd002652.62E-39278No hitNo description
PRINTSPR004041.6E-26323IPR002100Transcription factor, MADS-box
PfamPF003193.0E-231056IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-262338IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-263859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.6687177IPR002487Transcription factor, K-box
PfamPF014862.5E-2189171IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0048364Biological Processroot development
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: 202 aa     Download sequence    Send to blast
MARGKVQMKR IENPVHRQVT FCKRRAGLLK KAKELSILCD ADVGVFIFSN HGKLYELATN  60
GTMQGLIEKY LKSTQGAQAE PVMQTQPLDA KDEINMLKQE IEILQKGLRY MFGGGTGTMT  120
LDELLVLEKH LELWIYNIRS TKMDIMFQEI NLLRNKEGIL TAANKYLQDK MEENNGIANF  180
GPITTNNIEC PFAIPNEIFQ F*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During embryo development, expressed in a punctate pattern from the globular stage to the torpedo stage. {ECO:0000269|PubMed:11855641}.
UniprotTISSUE SPECIFICITY: Preferentially expressed in roots (PubMed:7549482). In root meristem, expressed in external cells of columella, lateral root cap and atrichoblasts. In mature root, expressed in the central cylinder (PubMed:11855641). Expressed in leaf vasculature, young floral meristems and nectaries (PubMed:18203871). {ECO:0000269|PubMed:11855641, ECO:0000269|PubMed:18203871, ECO:0000269|PubMed:7549482}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription activator that regulates root development by controlling cell proliferation in root meristem. May mediate responses to auxin in the root. May act as promoter of the flowering transition through up-regulation of SOC, FT and LFY. {ECO:0000269|PubMed:18203871}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin in root phloem. {ECO:0000269|PubMed:18203871}.
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_006441593.11e-148agamous-like MADS-box protein AGL12 isoform X2
SwissprotQ388415e-82AGL12_ARATH; Agamous-like MADS-box protein AGL12
TrEMBLV4T3Q31e-147V4T3Q3_9ROSI; Uncharacterized protein
STRINGXP_006441593.11e-147(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM70522641
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71692.12e-84AGAMOUS-like 12
Publications ? help Back to Top
  1. Zimmermann P,Hirsch-Hoffmann M,Hennig L,Gruissem W
    GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox.
    Plant Physiol., 2004. 136(1): p. 2621-32
    [PMID:15375207]
  2. Pacheco-Escobedo MA, et al.
    Longitudinal zonation pattern in Arabidopsis root tip defined by a multiple structural change algorithm.
    Ann. Bot., 2018.
    [PMID:27358290]
  3. García-Cruz KV, et al.
    The MADS-box XAANTAL1 increases proliferation at the Arabidopsis root stem-cell niche and participates in transition to differentiation by regulating cell-cycle components.
    Ann. Bot., 2018.
    [PMID:27474508]