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 Cucsa.061750.1
Common NameCsa_5G650620, LOC105435626
Organism
Cucumis sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis
Family MIKC_MADS
Protein Properties Length: 208aa    MW: 23703.6 Da    PI: 7.0871
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.061750.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF79.13.2e-25958150
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                    krien   rqvtf+kRr+g+lKKA+ELSvLCdae+ + ifs +gklye +
  Cucsa.061750.1  9 KRIENPVHRQVTFCKRRAGLLKKAKELSVLCDAEIGLFIFSAHGKLYELA 58
                    79*********************************************965 PP
2K-box46.71.4e-16871741399
           K-box  13 kaeslqqelakLkkeienLqreqRhllGedLes..LslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                     ++ + ++e+ +Lk+eie L+   R+ lG + ++  ++l eL   e+qLe  + ++Rs+K+++++e+ie l+++e  l  +nk+L+ k+e
  Cucsa.061750.1  87 QTLEVKEEIIRLKQEIEVLKGL-RNALGGGGGEgiMTLDELDIFEKQLEIWICQVRSTKMKFMCEEIEALRNQEFILTAANKYLHDKME 174
                     556789**************87.9998765543349*************************************************9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.9E-35160IPR002100Transcription factor, MADS-box
SuperFamilySSF554556.41E-28176IPR002100Transcription factor, MADS-box
PROSITE profilePS5006629.787161IPR002100Transcription factor, MADS-box
CDDcd002652.24E-40276No hitNo description
PRINTSPR004044.7E-27323IPR002100Transcription factor, MADS-box
PfamPF003192.8E-221056IPR002100Transcription factor, MADS-box
PRINTSPR004044.7E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004044.7E-273859IPR002100Transcription factor, MADS-box
PfamPF014861.0E-1686173IPR002487Transcription factor, K-box
PROSITE profilePS5129710.21188179IPR002487Transcription 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: 208 aa     Download sequence    Send to blast
MARGKVQMKR IENPVHRQVT FCKRRAGLLK KAKELSVLCD AEIGLFIFSA HGKLYELATK  60
GTMQGLIERY MKHTNGNQPP DPPIHHQTLE VKEEIIRLKQ EIEVLKGLRN ALGGGGGEGI  120
MTLDELDIFE KQLEIWICQV RSTKMKFMCE EIEALRNQEF ILTAANKYLH DKMEAENISN  180
TTNMEPVNIT NCQYPLTIQD ELFQLCT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A6e-17191187MEF2C
5f28_B6e-17191187MEF2C
5f28_C6e-17191187MEF2C
5f28_D6e-17191187MEF2C
Search in ModeBase
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankLN6818894e-94LN681889.1 Cucumis melo genomic scaffold, anchoredscaffold00051.
GenBankLN7132634e-94LN713263.1 Cucumis melo genomic chromosome, chr_9.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011656111.11e-153PREDICTED: agamous-like MADS-box protein AGL12
SwissprotQ388414e-66AGL12_ARATH; Agamous-like MADS-box protein AGL12
TrEMBLA0A0A0KW771e-152A0A0A0KW77_CUCSA; Uncharacterized protein
STRINGXP_008459723.11e-101(Cucumis melo)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF75663144
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71692.13e-64AGAMOUS-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. Ren Y, et al.
    An integrated genetic and cytogenetic map of the cucumber genome.
    PLoS ONE, 2009. 4(6): p. e5795
    [PMID:19495411]
  3. Guo S, et al.
    Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types.
    BMC Genomics, 2010. 11: p. 384
    [PMID:20565788]
  4. Li Z, et al.
    RNA-Seq improves annotation of protein-coding genes in the cucumber genome.
    BMC Genomics, 2011. 12: p. 540
    [PMID:22047402]
  5. Pacheco-Escobedo MA, et al.
    Longitudinal zonation pattern in Arabidopsis root tip defined by a multiple structural change algorithm.
    Ann. Bot., 2018.
    [PMID:27358290]
  6. 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]