PlantTFDB
Plant Transcription Factor Database
v4.0
Previous version: v1.0, v2.0, v3.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT1G53910.2
Common NameERF074, RAP2-12, RAP2.12, T18A20.14
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family ERF
Protein Properties Length: 358aa    MW: 39801 Da    PI: 4.9538
Description related to AP2 12
Gene Model
Gene Model ID Type Source Coding Sequence
AT1G53910.2genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP264.71.8e-20124173255
          AP2   2 gykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                  +y+G+r+++ +g+W+AeIrdp+e    +r++lg+f taeeAa+a++aa+++++g
  AT1G53910.2 124 QYRGIRQRP-WGKWAAEIRDPRE---GARIWLGTFKTAEEAARAYDAAARRIRG 173
                  69*******.**********965...3*************************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003802.1E-37124187IPR001471AP2/ERF domain
CDDcd000187.74E-18124182No hitNo description
PROSITE profilePS5103224.395124181IPR001471AP2/ERF domain
SuperFamilySSF541712.29E-22124182IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.101.0E-32124183IPR001471AP2/ERF domain
PRINTSPR003671.1E-11125136IPR001471AP2/ERF domain
PfamPF008473.9E-13125173IPR001471AP2/ERF domain
PRINTSPR003671.1E-11147163IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009873Biological Processethylene-activated signaling pathway
GO:0070483Biological Processdetection of hypoxia
GO:0005634Cellular Componentnucleus
GO:0005886Cellular Componentplasma membrane
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0005515Molecular Functionprotein binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000037anatomyshoot apex
PO:0000230anatomyinflorescence meristem
PO:0000293anatomyguard cell
PO:0008019anatomyleaf lamina base
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0009052anatomyflower pedicel
PO:0020030anatomycotyledon
PO:0020038anatomypetiole
PO:0020100anatomyhypocotyl
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
PO:0025195anatomypollen tube cell
PO:0025281anatomypollen
PO:0001016developmental stageL mature pollen stage
PO:0001054developmental stagevascular leaf senescent stage
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007064developmental stageLP.12 twelve leaves visible stage
PO:0007095developmental stageLP.08 eight leaves visible stage
PO:0007098developmental stageLP.02 two leaves visible stage
PO:0007103developmental stageLP.10 ten leaves visible stage
PO:0007115developmental stageLP.04 four leaves visible stage
PO:0007123developmental stageLP.06 six leaves visible stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 358 aa     Download sequence    Send to blast
MCGGAIISDF IPPPRSRRVT SEFIWPDLKK NLKGSKKSSK NRSNFFDFDA EFEADFQGFK  60
DDSSIDCDDD FDVGDVFADV KPFVFTSTPK PAVSAAAEGS VFGKKVTGLD GDAEKSANRK  120
RKNQYRGIRQ RPWGKWAAEI RDPREGARIW LGTFKTAEEA ARAYDAAARR IRGSKAKVNF  180
PEENMKANSQ KRSVKANLQK PVAKPNPNPS PALVQNSNIS FENMCFMEEK HQVSNNNNNQ  240
FGMTNSVDAG CNGYQYFSSD QGSNSFDCSE FGWSDQAPIT PDISSAVINN NNSALFFEEA  300
NPAKKLKSMD FETPYNNTEW DASLDFLNED AVTTQDNGAN PMDLWSIDEI HSMIGGVF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gcc_A3e-23124181260ETHYLENE RESPONSIVE ELEMENT BINDING FACTOR 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.212950.0bud| cell culture| flower| leaf| root| seed| silique
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1453367230.0
Genevisible262197_at0.0
Expression AtlasAT1G53910-
AtGenExpressAT1G53910-
ATTED-IIAT1G53910-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Highly expressed in seedlings, leaves, flowers, siliques and germinating seeds. {ECO:0000269|PubMed:22020282}.
Functional Description ? help Back to Top
Source Description
TAIRencodes a member of the ERF (ethylene response factor) subfamily B-2 of ERF/AP2 transcription factor family (RAP2.12). The protein contains one AP2 domain. There are 5 members in this subfamily including RAP2.2 AND RAP2.12.
UniProtTranscription factor involved in the activation of hypoxic gene expression and in ethylene response. Partially redundant with RAP2-2. Acts as a downstream regulator in the ethylene signaling pathway. {ECO:0000269|PubMed:22020282, ECO:0000269|PubMed:22530619}.
Function -- GeneRIF ? help Back to Top
  1. identification of a conserved amino-terminal amino acid sequence of RAP2.12 to be dedicated to an oxygen-dependent sequence of post-translational modifications, which ultimately lead to degradation of RAP2.12 under aerobic conditions
    [PMID: 22020282]
  2. In Arabidopsis, an effective low oxygen-sensing response requires RAP2.12 stabilization followed by HRA1 induction to modulate the extent of the anaerobic response by negative feedback regulation of RAP2.12.
    [PMID: 25226037]
  3. RAP2.2, RAP2.3 and RAP2.12 play a role in modulating oxidative and osmotic stress tolerance during submergence acclimation.
    [PMID: 25847219]
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00204DAP27203113Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT1G53910.2
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by hypoxia but not by ethylene. {ECO:0000269|PubMed:22020282}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source Target Gene (A: Activate/R: Repress)
ATRM AT1G77120(A)
Interaction ? help Back to Top
Source Intact With
IntActSearch Q9SSA8
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT1G53910
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY1130510.0AY113051.1 Arabidopsis thaliana At1g53910/T18A20_14 mRNA, complete cds.
GenBankAY0575450.0AY057545.1 Arabidopsis thaliana At1g53910/T18A20_14 mRNA, complete cds.
GenBankAY0372600.0AY037260.1 Arabidopsis thaliana At1g53910/T18A20_14 mRNA, complete cds.
GenBankAK3169800.0AK316980.1 Arabidopsis thaliana AT1G53910 mRNA, complete cds, clone: RAFL16-70-F02.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001031185.10.0ethylene-responsive transcription factor RAP2-12
RefseqNP_175794.10.0ethylene-responsive transcription factor RAP2-12
SwissprotQ9SSA80.0RA212_ARATH; Ethylene-responsive transcription factor RAP2-12
TrEMBLB9DG100.0B9DG10_ARATH; AT1G53910 protein
STRINGAT1G53910.10.0(Arabidopsis thaliana)
Publications ? help Back to Top
  1. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  2. Yamada K, et al.
    Empirical analysis of transcriptional activity in the Arabidopsis genome.
    Science, 2003. 302(5646): p. 842-6
    [PMID:14593172]
  3. Kim S,Soltis PS,Wall K,Soltis DE
    Phylogeny and domain evolution in the APETALA2-like gene family.
    Mol. Biol. Evol., 2006. 23(1): p. 107-20
    [PMID:16151182]
  4. Nakano T,Suzuki K,Fujimura T,Shinshi H
    Genome-wide analysis of the ERF gene family in Arabidopsis and rice.
    Plant Physiol., 2006. 140(2): p. 411-32
    [PMID:16407444]
  5. Cao D,Cheng H,Wu W,Soo HM,Peng J
    Gibberellin mobilizes distinct DELLA-dependent transcriptomes to regulate seed germination and floral development in Arabidopsis.
    Plant Physiol., 2006. 142(2): p. 509-25
    [PMID:16920880]
  6. Jung J, et al.
    The barley ERF-type transcription factor HvRAF confers enhanced pathogen resistance and salt tolerance in Arabidopsis.
    Planta, 2007. 225(3): p. 575-88
    [PMID:16937017]
  7. Papdi C, et al.
    Functional identification of Arabidopsis stress regulatory genes using the controlled cDNA overexpression system.
    Plant Physiol., 2008. 147(2): p. 528-42
    [PMID:18441225]
  8. Wang Y, et al.
    Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis.
    Plant Physiol., 2008. 148(3): p. 1201-11
    [PMID:18775970]
  9. Jakoby MJ, et al.
    Transcriptional profiling of mature Arabidopsis trichomes reveals that NOECK encodes the MIXTA-like transcriptional regulator MYB106.
    Plant Physiol., 2008. 148(3): p. 1583-602
    [PMID:18805951]
  10. Arabidopsis Interactome Mapping Consortium
    Evidence for network evolution in an Arabidopsis interactome map.
    Science, 2011. 333(6042): p. 601-7
    [PMID:21798944]
  11. Licausi F, et al.
    Oxygen sensing in plants is mediated by an N-end rule pathway for protein destabilization.
    Nature, 2011. 479(7373): p. 419-22
    [PMID:22020282]
  12. Bailey-Serres J, et al.
    Making sense of low oxygen sensing.
    Trends Plant Sci., 2012. 17(3): p. 129-38
    [PMID:22280796]
  13. Zhao Y, et al.
    Arabidopsis RAP2.2 plays an important role in plant resistance to Botrytis cinerea and ethylene responses.
    New Phytol., 2012. 195(2): p. 450-60
    [PMID:22530619]
  14. Sobkowiak L,Karlowski W,Jarmolowski A,Szweykowska-Kulinska Z
    Non-Canonical Processing of Arabidopsis pri-miR319a/b/c Generates Additional microRNAs to Target One RAP2.12 mRNA Isoform.
    Front Plant Sci, 2012. 3: p. 46
    [PMID:22639648]
  15. Weits DA, et al.
    Plant cysteine oxidases control the oxygen-dependent branch of the N-end-rule pathway.
    Nat Commun, 2014. 5: p. 3425
    [PMID:24599061]
  16. Giuntoli B, et al.
    A trihelix DNA binding protein counterbalances hypoxia-responsive transcriptional activation in Arabidopsis.
    PLoS Biol., 2014. 12(9): p. e1001950
    [PMID:25226037]
  17. Jin J, et al.
    An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors.
    Mol. Biol. Evol., 2015. 32(7): p. 1767-73
    [PMID:25750178]
  18. Papdi C, et al.
    The low oxygen, oxidative and osmotic stress responses synergistically act through the ethylene response factor VII genes RAP2.12, RAP2.2 and RAP2.3.
    Plant J., 2015. 82(5): p. 772-84
    [PMID:25847219]
  19. Okamuro JK,Caster B,Villarroel R,Van Montagu M,Jofuku KD
    The AP2 domain of APETALA2 defines a large new family of DNA binding proteins in Arabidopsis.
    Proc. Natl. Acad. Sci. U.S.A., 1997. 94(13): p. 7076-81
    [PMID:9192694]