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 GSVIVT01019883001
Common NameLOC100246102, VIT_02s0025g04650
Organism
Vitis vinifera
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis
Family MIKC_MADS
Protein Properties Length: 208aa    MW: 23556 Da    PI: 8.4855
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSVIVT01019883001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF90.39.9e-29252151
                       S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
             SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                       krien   rqvtfskRr g+lKKA+ELSvLCdaeva+iifs++gk++e+ss
  GSVIVT01019883001  2 KRIENAASRQVTFSKRRSGLLKKAFELSVLCDAEVALIIFSPRGKVFEFSS 52
                       79***********************************************96 PP
2K-box71.82e-2476164997
              K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                        + e+++ +l+ e   L k+ie L+ ++R+llGe+L+s+s++eLqq+e++Le+sl++iR +Kn+l + +ie+l+++e+ l een +Lr k
  GSVIVT01019883001  76 APENEQHHLEGETVDLAKKIELLEVSKRRLLGECLDSCSIEELQQIENELEQSLSNIRIQKNHLCKGHIERLKEQERILGEENAKLRGK 164
                        67888999******************************************************************************977 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd002654.58E-37163No hitNo description
PROSITE profilePS5006627.964154IPR002100Transcription factor, MADS-box
SMARTSM004324.6E-31153IPR002100Transcription factor, MADS-box
SuperFamilySSF554557.59E-29165IPR002100Transcription factor, MADS-box
PfamPF003196.9E-26350IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-171631IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-173152IPR002100Transcription factor, MADS-box
PfamPF014861.3E-2478165IPR002487Transcription factor, K-box
PROSITE profilePS5129713.62981171IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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
MKRIENAASR QVTFSKRRSG LLKKAFELSV LCDAEVALII FSPRGKVFEF SSSSINKTIE  60
RYQSKAKGLG ISKRGAPENE QHHLEGETVD LAKKIELLEV SKRRLLGECL DSCSIEELQQ  120
IENELEQSLS NIRIQKNHLC KGHIERLKEQ ERILGEENAK LRGKCGLQPL QPSTKHQSVP  180
YVEISEVETE LFIGPPERRT VRYLSET*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1egw_A2e-17162768MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B2e-17162768MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C2e-17162768MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D2e-17162768MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
3mu6_A1e-17364970Myocyte-specific enhancer factor 2A
3mu6_B1e-17364970Myocyte-specific enhancer factor 2A
3mu6_C1e-17364970Myocyte-specific enhancer factor 2A
3mu6_D1e-17364970Myocyte-specific enhancer factor 2A
5f28_A2e-173621069MEF2C
5f28_B2e-173621069MEF2C
5f28_C2e-173621069MEF2C
5f28_D2e-173621069MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Mostly expressed in the outer layers of the root meristem (lateral root cap and epidermis) and in the central cylinder cells of mature roots. Also present in rosette leaves and seedlings and, to a lesser extent, in cauline leaves and flowers. Enriched in apices including the shoot apical meristem and developing leaf primordia. {ECO:0000269|PubMed:11115127, ECO:0000269|PubMed:12837945, ECO:0000269|PubMed:12949148, ECO:0000269|PubMed:16778081}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that promotes flowering, especially in response to vernalization by short periods of cold, in an FLC-inpedendent manner. {ECO:0000269|PubMed:16778081}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Maintained at very low levels by the polycomb-group (PcG) proteins MSI1, CLF, and EMF2 via histone methylation (H3K27me3). Derepressed upon cold treatment (vernalization). {ECO:0000269|PubMed:16778081}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAM4467371e-81AM446737.2 Vitis vinifera contig VV78X204811.3, whole genome shotgun sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002275695.21e-147PREDICTED: agamous-like MADS-box protein AGL19
SwissprotO827432e-67AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBLF6HUJ01e-146F6HUJ0_VITVI; Uncharacterized protein
STRINGVIT_02s0025g04650.t011e-147(Vitis vinifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G22950.12e-57AGAMOUS-like 19
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Suter L,Rüegg M,Zemp N,Hennig L,Widmer A
    Gene regulatory variation mediates flowering responses to vernalization along an altitudinal gradient in Arabidopsis.
    Plant Physiol., 2014. 166(4): p. 1928-42
    [PMID:25339407]