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 AT3G10040.1
Organism
Arabidopsis thaliana
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 Trihelix
Protein Properties Length: 431aa    MW: 48870.3 Da    PI: 8.063
Description sequence-specific DNA binding transcription factors
Gene Model
Gene Model ID Type Source Coding Sequence
AT3G10040.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix71.12e-22105212186
     trihelix   1 rWtkqevlaLiearremeerlrrgk.....................lkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkr.tsess 76 
                  +Wt+ +v++Li a+ +++++ + +                      +kk++W++vs++m e+gf++sp+qC++k+++lnkryk+++++ +k+ +++++
  AT3G10040.1 105 KWTDTMVRLLIMAVFYIGDEAGLNDpvdakkktgggggggggggmlQKKGKWKSVSRAMVEKGFSVSPQQCEDKFNDLNKRYKRVNDILGKGiACRVV 202
                  7**************9888888554455567788899999999999**********************************************89**** PP

     trihelix  77 stcpyfdqle 86 
                  ++  ++++++
  AT3G10040.1 203 ENQGLLESMD 212
                  ***9999998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF138379.5E-20103238No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010629Biological Processnegative regulation of gene expression
GO:1900037Biological Processregulation of cellular response to hypoxia
GO:0005634Cellular Componentnucleus
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:0000037anatomyshoot apex
PO:0000084anatomyplant sperm cell
PO:0009005anatomyroot
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009052anatomyflower pedicel
PO:0020100anatomyhypocotyl
PO:0025022anatomycollective leaf structure
PO:0025281anatomypollen
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:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 431 aa     Download sequence    Send to blast
MESNVMFSGF SPRMLSLEMP QNPPNPQNSI QFQHPHPYTT SGDQQTQPPI KSLYPYASKP  60
KQMSPISGGG CDDEDRGSGS GSGCNPEDSA GTDGKRKLSQ WHRMKWTDTM VRLLIMAVFY  120
IGDEAGLNDP VDAKKKTGGG GGGGGGGGML QKKGKWKSVS RAMVEKGFSV SPQQCEDKFN  180
DLNKRYKRVN DILGKGIACR VVENQGLLES MDHLTPKLKD EVKKLLNSKH LFFREMCAYH  240
NSCGHLGGHD QQPPQQNPIS IPIPSQQQNC FHAAEAGKMA RIAERVEVEE EVESDMAEDS  300
ESEMEESEEE ETRKKRRIST AVKRLREEAA SVVEDVGKSV WEKKEWIRRK MLEIEEKKIG  360
YEWEGVEMEK QRVKWMRYRS KKEREMEKAK LDNQRRRLET ERMILMLRRS EIELNELQSS  420
GTRVDPSSAK G
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.400010.0flower| root
Expression -- Microarray ? help Back to Top
Source ID E-value
Genevisible258930_at0.0
Expression AtlasAT3G10040-
AtGenExpressAT3G10040-
ATTED-IIAT3G10040-
Function -- GeneRIF ? help Back to Top
  1. HRA1 interacts with the RAP2.12 protein but with only a few genomic DNA regions from hypoxia-regulated genes, indicating that HRA1 modulates RAP2.12 through protein-protein interaction. [HRA1]
    [PMID: 25226037]
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT3G10040.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Interaction ? help Back to Top
Source Intact With
BioGRIDAT1G53910
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT3G10040
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankATAC0109270.0AC010927.5 Arabidopsis thaliana chromosome III BAC T22K18 genomic sequence, complete sequence.
GenBankAY0910280.0AY091028.1 Arabidopsis thaliana unknown protein (At3g10040) mRNA, complete cds.
GenBankCP0026860.0CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_187615.20.0sequence-specific DNA binding transcription factor
TrEMBLA0A384KQJ00.0A0A384KQJ0_ARATH; Uncharacterized protein
TrEMBLQ8RWY50.0Q8RWY5_ARATH; Sequence-specific DNA binding transcription factor
STRINGAT3G10040.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM67622741
Representative plantOGRP9974610
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. Gonzali S, et al.
    The use of microarrays to study the anaerobic response in Arabidopsis.
    Ann. Bot., 2005. 96(4): p. 661-8
    [PMID:16033780]
  3. Oono Y, et al.
    Monitoring expression profiles of Arabidopsis genes during cold acclimation and deacclimation using DNA microarrays.
    Funct. Integr. Genomics, 2006. 6(3): p. 212-34
    [PMID:16463051]
  4. Luhua S, et al.
    Linking genes of unknown function with abiotic stress responses by high-throughput phenotype screening.
    Physiol Plant, 2013. 148(3): p. 322-33
    [PMID:23517122]
  5. 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]