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 OMERI01G08660.3
Organism
Oryza meridionalis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family ARF
Protein Properties Length: 706aa    MW: 78124.1 Da    PI: 5.7634
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI01G08660.3genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B369.64.3e-22128228198
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f+k+ltpsd++++g +++ +++a+e+       +     +++l+ +d++g +W++k+iyr++++r++lt+GW+ Fv +++L +gD +v    ++
  OMERI01G08660.3 128 FCKILTPSDTSTHGGFSVLRRHANEClppldmsMAT--PTQELITKDLHGSEWRFKHIYRGQPRRHLLTTGWSTFVTSKKLISGDAFVYL--RS 217
                      99****************************974333..3458999******************************************999..44 PP

                      SEE..EEEEE- CS
               B3  88 sefelvvkvfr 98 
                      +++e +v+v+r
  OMERI01G08660.3 218 ETGEQRVGVRR 228
                      77778999997 PP
2Auxin_resp96.93e-32254335183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      a+ha++t+s+F v+Y+Pr s+s+++v+v+k+++a kv + vGmRfkm+fe+ed++ +++sGt+vg  d  +++W++S+W+sLk
  OMERI01G08660.3 254 ASHAIKTNSIFLVYYRPRLSQSQYIVSVNKYLAASKVGFNVGMRFKMSFEGEDVPVKKFSGTIVGEGD-LSLQWSGSEWKSLK 335
                      789*****************************************************************.566*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.84E-37119257IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.7E-36120243IPR015300DNA-binding pseudobarrel domain
CDDcd100172.68E-16126228No hitNo description
SMARTSM010191.1E-16128230IPR003340B3 DNA binding domain
PfamPF023621.0E-19128228IPR003340B3 DNA binding domain
PROSITE profilePS5086311.138128230IPR003340B3 DNA binding domain
PfamPF065077.2E-29254335IPR010525Auxin response factor
PfamPF023096.9E-7590638IPR033389AUX/IAA domain
SuperFamilySSF542773.66E-9598675No hitNo description
PROSITE profilePS5174525.447602691IPR000270PB1 domain
Gene3DG3DSA:3.10.20.2401.6E-4604667No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 706 aa     Download sequence    Send to blast
MSSQGAGGGV GDPELFAELW RACAGPLVEV PQRDERVFYF LQGHLEQVLA LPLAAAEFFC  60
FSPSILAGRE RVPYKILCKV VNVELKAETE TDEVFAQITL QPDPDQENLP TLPDPPLPEQ  120
PRPVVHSFCK ILTPSDTSTH GGFSVLRRHA NECLPPLDMS MATPTQELIT KDLHGSEWRF  180
KHIYRGQPRR HLLTTGWSTF VTSKKLISGD AFVYLRSETG EQRVGVRRLV QKQSTMPASV  240
ISSQSMHLGV LASASHAIKT NSIFLVYYRP RLSQSQYIVS VNKYLAASKV GFNVGMRFKM  300
SFEGEDVPVK KFSGTIVGEG DLSLQWSGSE WKSLKVQWDE VTNVNGPERV SPWEIETCDG  360
TAPAINVPLQ SATKNKRPRE PSETIDLQSL EPAQEFWLSG MPQQHEKTGI GSSEPNCISG  420
HQVVWPGEHP GYGAVSSSSV CQNPLVLESW LKDFNSSNKG VSPTLSEISQ KIFQVTSNEA  480
RIATWPARSA YQAEEPTSKL SSNTAACGYR TEEVAPNASK VVEGKKEPAM FRLFGVDLMK  540
CTSISTTTDD KSSVGAGEAS AKGTGSHEDS GQLSAFSKVT KEHIAADESP REIQSHQNYT  600
ARTRIKVQMH GNAVGRAVDL ANLDGYEQLM NELEEMFNIK DLKQKWKVAF TDDEGDTMEV  660
GDDPWLEFCQ MVRKIVLYPI EDEKKIEPHP KLLSSANPEQ DQKTGF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-14733567353Auxin response factor 1
4ldw_A1e-14733567353Auxin response factor 1
4ldw_B1e-14733567353Auxin response factor 1
4ldx_A1e-14733567353Auxin response factor 1
4ldx_B1e-14733567353Auxin response factor 1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs).
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin under light or dark conditions. {ECO:0000269|PubMed:17408882}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0713000.0AB071300.1 Oryza sativa OsARF16 mRNA for auxin response factor 16, partial cds.
GenBankAK1025210.0AK102521.1 Oryza sativa Japonica Group cDNA clone:J033095P08, full insert sequence.
GenBankEU8470080.0EU847008.1 Oryza sativa Japonica Group clone KCS385B05 auxin response factor mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015622434.10.0auxin response factor 1
SwissprotQ5NB850.0ARFA_ORYSJ; Auxin response factor 1
TrEMBLA0A0E0BZN70.0A0A0E0BZN7_9ORYZ; Auxin response factor
STRINGOS01T0236300-010.0(Oryza sativa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G59750.31e-178auxin response factor 1
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]