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 XP_009112008.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MIKC_MADS
Protein Properties Length: 193aa    MW: 22835.2 Da    PI: 9.8544
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009112008.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF94.45.3e-30959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    k+ien + rqvtfskRrng+lKKA+ELSvLCda+v++i+fs++g+lye+ss
  XP_009112008.1  9 KKIENATSRQVTFSKRRNGLLKKAYELSVLCDAQVSLIVFSQRGRLYEFSS 59
                    68***********************************************96 PP
2K-box676.4e-2377170497
           K-box   4 ssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                      ++++ +e   ++l+qe++ + ++ie L+  +R+llG++L+s+sl+eLq++ +qL++sl ++R++K ++++eq+e+l+ kek+l een +L++k
  XP_009112008.1  77 ETSNQYSEMYIQQLKQEASHMIAKIELLEFHKRKLLGQELSSCSLQELQEIDSQLQRSLGEVRARKAQMFKEQLEKLKAKEKQLLEENVQLHQK 170
                     44555888899******************999************************************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.352161IPR002100Transcription factor, MADS-box
SMARTSM004327.5E-41160IPR002100Transcription factor, MADS-box
PRINTSPR004044.4E-31323IPR002100Transcription factor, MADS-box
SuperFamilySSF554558.11E-34386IPR002100Transcription factor, MADS-box
CDDcd002651.06E-42378No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003195.1E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004044.4E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004044.4E-313859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129713.08987186IPR002487Transcription factor, K-box
PfamPF014862.0E-2287170IPR002487Transcription 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: 193 aa     Download sequence    Send to blast
MVRGKIEMKK IENATSRQVT FSKRRNGLLK KAYELSVLCD AQVSLIVFSQ RGRLYEFSSS  60
DMQNTIERYH TYRNDHETSN QYSEMYIQQL KQEASHMIAK IELLEFHKRK LLGQELSSCS  120
LQELQEIDSQ LQRSLGEVRA RKAQMFKEQL EKLKAKEKQL LEENVQLHQK NVIDPWRGSI  180
DQQKKFRVID LNL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P9e-21178178Myocyte-specific enhancer factor 2B
1tqe_Q9e-21178178Myocyte-specific enhancer factor 2B
1tqe_R9e-21178178Myocyte-specific enhancer factor 2B
1tqe_S9e-21178178Myocyte-specific enhancer factor 2B
6c9l_A9e-21178178Myocyte-specific enhancer factor 2B
6c9l_B9e-21178178Myocyte-specific enhancer factor 2B
6c9l_C9e-21178178Myocyte-specific enhancer factor 2B
6c9l_D9e-21178178Myocyte-specific enhancer factor 2B
6c9l_E9e-21178178Myocyte-specific enhancer factor 2B
6c9l_F9e-21178178Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the shoot apical meristem (SAM) during the vegetative phase and the floral transition. After floral transition, expressed in apical meristem (AM), inflorescence meristem (IM) and floral primordia. {ECO:0000269|PubMed:21609362}.
UniprotTISSUE SPECIFICITY: Expressed in quiescent center (QC) cells of root tips (PubMed:18162590, PubMed:21689171). Expressed at the base of the petiole of cotyledons and leaves, in flower buds, petals, sepals and abscission zone of flowers and siliques. {ECO:0000269|PubMed:18162590, ECO:0000269|PubMed:21689171}.
Functional Description ? help Back to Top
Source Description
UniProtMADS-box transcription factor that acts with AGL71 and AGL72 in the control of flowering time. Promotes flowering at the shoot apical and axillary meristems. Seems to act through a gibberellin-dependent pathway. Interacts genetically with SOC1 and its expression is directly regulated by SOC1 (PubMed:21609362). Plays a role in controlling flower organ senescence and abscission by repressing ethylene responses and regulating the expression of BOP2 and IDA (PubMed:21689171). {ECO:0000269|PubMed:21609362, ECO:0000269|PubMed:21689171}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009112008.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0542200.0AY054220.1 Arabidopsis thaliana At2g45660/F17K2.19 mRNA, complete cds.
GenBankAY0652060.0AY065206.1 Arabidopsis thaliana unknown protein (At5g62165) mRNA, complete cds.
GenBankAY0660350.0AY066035.1 Arabidopsis thaliana At2g45660/F17K2.19 mRNA, complete cds.
GenBankAY0965090.0AY096509.1 Arabidopsis thaliana unknown protein (At5g62165) mRNA, complete cds.
GenBankAY1412130.0AY141213.1 Arabidopsis thaliana MADS-box protein AGL42 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009112008.11e-139PREDICTED: MADS-box protein AGL42-like
RefseqXP_013661108.11e-139MADS-box protein AGL42 isoform X1
SwissprotQ9FIS11e-116AGL42_ARATH; MADS-box protein AGL42
TrEMBLA0A078FVH41e-138A0A078FVH4_BRANA; BnaA09g05900D protein
TrEMBLA0A3P5Y8H81e-138A0A3P5Y8H8_BRACM; Uncharacterized protein
TrEMBLM4F4A71e-137M4F4A7_BRARP; Uncharacterized protein
STRINGBra035907.1-P1e-138(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7828413
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62165.31e-105AGAMOUS-like 42