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 Carubv10000560m
Common NameCARUB_v10000560mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family AP2
Protein Properties Length: 582aa    MW: 64937.8 Da    PI: 6.885
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10000560mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP231.54.5e-10268324155
              AP2   1 sgykGVrwdkkrgrWvAeIrd.pseng...krkrfslgkfgtaeeAakaaiaarkkleg 55 
                      s y+GV++++++gr++A+++d  +       rk  + g ++ +++Aa+a++ a++k+++
  Carubv10000560m 268 SIYRGVTRHRWTGRYEAHLWDnSCR-RegqARKGRQ-GGYDKEDKAARAYDLAALKYWN 324
                      57*******************4444.2344336655.7799999*************97 PP
2AP249.69.6e-16367418155
              AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                      s y+GV++++++grW A+I  +     +k  +lg+f t+eeAa+a++ a+ k++g
  Carubv10000560m 367 SIYRGVTRHHQQGRWQARIGRVAG---NKDLYLGTFATEEEAAEAYDIAAIKFRG 418
                      57****************988532...5************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008477.7E-8268324IPR001471AP2/ERF domain
SuperFamilySSF541711.57E-13268333IPR016177DNA-binding domain
CDDcd000182.77E-17268334No hitNo description
PROSITE profilePS5103216.753269332IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.3E-10269332IPR001471AP2/ERF domain
SMARTSM003801.8E-18269338IPR001471AP2/ERF domain
PRINTSPR003675.3E-6270281IPR001471AP2/ERF domain
PfamPF008474.0E-10367418IPR001471AP2/ERF domain
CDDcd000183.41E-11367426No hitNo description
SuperFamilySSF541711.11E-17367427IPR016177DNA-binding domain
PROSITE profilePS5103219.111368426IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.105.5E-18368426IPR001471AP2/ERF domain
SMARTSM003807.9E-31368432IPR001471AP2/ERF domain
PRINTSPR003675.3E-6408428IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010080Biological Processregulation of floral meristem growth
GO:0010492Biological Processmaintenance of shoot apical meristem identity
GO:0035265Biological Processorgan growth
GO:0048364Biological Processroot development
GO:0060772Biological Processleaf phyllotactic patterning
GO:0060774Biological Processauxin mediated signaling pathway involved in phyllotactic patterning
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 582 aa     Download sequence    Send to blast
MEMLRSSDQS QFVSYDASSA ASSSPYLLDN FYGWTNQKPQ EFFKEEAQLA AASMADSTIL  60
TTFVDPQSHH SQSHIPKLED FLGDSSSIVR YSDNSQTETQ DSSLTQIYDP RHHHHPNHNQ  120
NHHNQTGFYS DHHDFKTMAG FQTAFSTNSG SEVDDSASIG RTHLAGEYLG HVVESSGPEL  180
GFHGGSNTAN GGALSLGVNV NSSNHRNEND SNQVTTNHHY RGVNNGDRNS NNNESEKTDS  240
EKEKPIVAVE TSDCSNKKIA DTFGQRTSIY RGVTRHRWTG RYEAHLWDNS CRREGQARKG  300
RQGGYDKEDK AARAYDLAAL KYWNATATTN FPITNYSKEL EEMKHMTKQE FIASLRRKSS  360
GFSRGASIYR GVTRHHQQGR WQARIGRVAG NKDLYLGTFA TEEEAAEAYD IAAIKFRGIN  420
AVTNFEMNRY DVEAIMKSAL PIGGAAKRLK LSLEAASSEQ KPILGHQLHH FQQQQQQQQQ  480
QQLQLQSSPN HSSINFALCP NSAVQSQQII PCGIPFEAAA LYHHQQQQQQ QQHQQQNFFQ  540
HFPANAASDS TGSNNNSNVQ GSMGLMAPNP AEFFLWPNPS Y*
Functional Description ? help Back to Top
Source Description
UniProtProbably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00504DAPTransfer from AT5G10510Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10000560m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY9741970.0AY974197.1 Arabidopsis thaliana clone At5g10510 AP2/EREBP transcription factor mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023635960.10.0AP2-like ethylene-responsive transcription factor AIL6
SwissprotQ52QU20.0AIL6_ARATH; AP2-like ethylene-responsive transcription factor AIL6
TrEMBLR0H6420.0R0H642_9BRAS; Uncharacterized protein
STRINGXP_006287362.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM33332765
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G10510.20.0AINTEGUMENTA-like 6
Publications ? help Back to Top
  1. Krizek BA
    Intronic sequences are required for AINTEGUMENTA-LIKE6 expression in Arabidopsis flowers.
    BMC Res Notes, 2015. 8: p. 556
    [PMID:26459062]
  2. Yamaguchi N,Jeong CW,Nole-Wilson S,Krizek BA,Wagner D
    AINTEGUMENTA and AINTEGUMENTA-LIKE6/PLETHORA3 Induce LEAFY Expression in Response to Auxin to Promote the Onset of Flower Formation in Arabidopsis.
    Plant Physiol., 2016. 170(1): p. 283-93
    [PMID:26537561]
  3. Krizek BA, et al.
    RNA-Seq Links the Transcription Factors AINTEGUMENTA and AINTEGUMENTA-LIKE6 to Cell Wall Remodeling and Plant Defense Pathways.
    Plant Physiol., 2016. 171(3): p. 2069-84
    [PMID:27208279]
  4. Du Y,Scheres B
    PLETHORA transcription factors orchestrate de novo organ patterning during Arabidopsis lateral root outgrowth.
    Proc. Natl. Acad. Sci. U.S.A., 2017. 114(44): p. 11709-11714
    [PMID:29078398]