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 mrna25070.1-v1.0-hybrid
Organism
Fragaria vesca
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria
Family MIKC_MADS
Protein Properties Length: 231aa    MW: 26513.3 Da    PI: 9.4999
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
mrna25070.1-v1.0-hybridgenomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF96.71e-30959151
                             S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                   SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                             krien++nrqvtf+kRrng+lKKA+ELS+LC+aeva+i+fss+g+lyeys+
  mrna25070.1-v1.0-hybrid  9 KRIENTTNRQVTFCKRRNGLLKKAYELSILCEAEVALIVFSSRGRLYEYSN 59
                             79***********************************************95 PP
2K-box105.18.4e-35801746100
                    K-box   6 gks.leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqee 90 
                                   +e +a+++qqe++kL+ +i++Lq+++Rhl+G++L++L++keL+qLe++Le++l++iRskK+e+ll++ie+lqk+e el++e
  mrna25070.1-v1.0-hybrid  80 A-TtITEINAQYYQQESTKLRHQIQMLQNSNRHLMGDSLSNLTVKELKQLENRLERGLTRIRSKKHEMLLAEIEYLQKREIELENE 164
                              3.348899****************************************************************************** PP

                    K-box  91 nkaLrkklee 100
                              n  +r+k++e
  mrna25070.1-v1.0-hybrid 165 NVLIRAKIAE 174
                              *******986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004324.4E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.459161IPR002100Transcription factor, MADS-box
SuperFamilySSF554558.76E-32276IPR002100Transcription factor, MADS-box
CDDcd002653.82E-41276No hitNo description
PRINTSPR004043.9E-32323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003196.3E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004043.9E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004043.9E-323859IPR002100Transcription factor, MADS-box
PfamPF014861.5E-2687172IPR002487Transcription factor, K-box
PROSITE profilePS5129715.58788178IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0080155Biological Processregulation of double fertilization forming a zygote and endosperm
GO:0090376Biological Processseed trichome differentiation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009001anatomyfruit
PO:0007010developmental stagewhole plant fruit ripening stage
PO:0007027developmental stagewhole plant fruit formation stage 70% to final size
Sequence ? help Back to Top
Protein Sequence    Length: 231 aa     Download sequence    Send to blast
MGRGKIEIKR IENTTNRQVT FCKRRNGLLK KAYELSILCE AEVALIVFSS RGRLYEYSNN  60
NSIRNTIERY KKASSDNSGA TTITEINAQY YQQESTKLRH QIQMLQNSNR HLMGDSLSNL  120
TVKELKQLEN RLERGLTRIR SKKHEMLLAE IEYLQKREIE LENENVLIRA KIAEVERLQQ  180
ADLVSGAELN AIQALASRNF FESTMMEGET SYSQPEKKLL HLGCVISTIL *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P2e-19164164Myocyte-specific enhancer factor 2B
1tqe_Q2e-19164164Myocyte-specific enhancer factor 2B
1tqe_R2e-19164164Myocyte-specific enhancer factor 2B
1tqe_S2e-19164164Myocyte-specific enhancer factor 2B
6c9l_A2e-19164164Myocyte-specific enhancer factor 2B
6c9l_B2e-19164164Myocyte-specific enhancer factor 2B
6c9l_C2e-19164164Myocyte-specific enhancer factor 2B
6c9l_D2e-19164164Myocyte-specific enhancer factor 2B
6c9l_E2e-19164164Myocyte-specific enhancer factor 2B
6c9l_F2e-19164164Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in seed development (PubMed:21447172, Ref.1, PubMed:29853599). Plays a role in seed morphogenesis by promoting the correct development of endotesta cell layer, which directs the further development of the seed coat, the endosperm, and consequently the embryo (Ref.1, PubMed:29853599). {ECO:0000269|PubMed:21447172, ECO:0000269|PubMed:29853599, ECO:0000269|Ref.1}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapmrna25070.1-v1.0-hybrid
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_011461175.11e-160PREDICTED: agamous-like MADS-box protein AGL11 isoform X3
SwissprotF6I4571e-129AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A2P6PF321e-152A0A2P6PF32_ROSCH; Putative transcription factor MADS-MIKC family
STRINGXP_004294526.11e-153(Fragaria vesca)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF68429102
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G09960.11e-116MIKC_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. Mejía N, et al.
    Molecular, genetic and transcriptional evidence for a role of VvAGL11 in stenospermocarpic seedlessness in grapevine.
    BMC Plant Biol., 2011. 11: p. 57
    [PMID:21447172]
  4. 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]
  5. Malabarba J, et al.
    The MADS-box gene Agamous-like 11 is essential for seed morphogenesis in grapevine.
    J. Exp. Bot., 2017. 68(7): p. 1493-1506
    [PMID:28369525]
  6. Royo C, et al.
    The Major Origin of Seedless Grapes Is Associated with a Missense Mutation in the MADS-Box Gene VviAGL11.
    Plant Physiol., 2018. 177(3): p. 1234-1253
    [PMID:29853599]