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 OMERI02G05780.1
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: 908aa    MW: 100789 Da    PI: 6.0849
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI02G05780.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3781e-24134235199
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f+k+lt sd++++g +++p++ ae+        ++++++  +l+ +d++g++W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F   ++
  OMERI02G05780.1 134 FCKTLTASDTSTHGGFSVPRRAAEKVfppldftQQPPAQ--ELMAKDLHGNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--WN 223
                      99*****************************86555544..8************************************************..78 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      ++ +l+++++r+
  OMERI02G05780.1 224 DSNQLLLGIRRA 235
                      78889***9997 PP
2Auxin_resp120.41.4e-39260343183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      aahaast+s F+++YnPras+seFv++++k++ka++ +++svGmRf+m fete+ss rr++Gt++g+sdldpvrW+nS+Wrs+k
  OMERI02G05780.1 260 AAHAASTNSRFTIFYNPRASPSEFVIPLAKYVKAVYhTRISVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWTNSHWRSVK 343
                      79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.44E-48119263IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.7E-42126249IPR015300DNA-binding pseudobarrel domain
CDDcd100172.04E-21133234No hitNo description
SMARTSM010193.3E-25134236IPR003340B3 DNA binding domain
PfamPF023624.6E-23134235IPR003340B3 DNA binding domain
PROSITE profilePS5086313.098134236IPR003340B3 DNA binding domain
PfamPF065072.5E-34260343IPR010525Auxin response factor
PfamPF023091.4E-7772862IPR033389AUX/IAA domain
SuperFamilySSF542771.5E-7774853No hitNo description
PROSITE profilePS5174524.082777861IPR000270PB1 domain
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: 908 aa     Download sequence    Send to blast
MKLSPSAAGV SDQPPSPPEV AEEQKCLNSE LWHACAGPLV SLPAVGSRVV YFPQGHSEQV  60
AASTNKEMES QIPNYPNLPP QLICQLHNVT MHADAETDEV YAQMTLQPLS PQELKDPFLP  120
AELGTASKQP TNYFCKTLTA SDTSTHGGFS VPRRAAEKVF PPLDFTQQPP AQELMAKDLH  180
GNEWKFRHIF RGQPKRHLLT TGWSVFVSAK RLVAGDSVLF IWNDSNQLLL GIRRANRPQT  240
VMPSSVLSSD SMHIGLLAAA AHAASTNSRF TIFYNPRASP SEFVIPLAKY VKAVYHTRIS  300
VGMRFRMLFE TEESSVRRYM GTITGISDLD PVRWTNSHWR SVKVGWDEST AGERQPRVSL  360
WEIEPLTTFP MYPSPFPLRL KRPWPTGLPS LYGGKEDDLT SSLMWLRDGQ NTGFQSLNFG  420
GLGMSPWMQP RLDSSLLGLQ PDMYQTIAAA AALQNTTKQV SPAMLQFQQP QNIVGRSSLL  480
SSQILQQAQP QFQQMYHQNI NGNSIQGHSQ PEYLQQSLQH CQSFNEQKPQ LQPQQQQQES  540
HQQQPQHQQM QQQKHLPNFQ TVPNALSVFS QLSSTPQSTP STLQTVSPFA QQHNFPDTNI  600
SCLSPSNVSS MHDTLRSFPS EAASDLPGVP RITPVPVSDP WSSKRVAVES TISSRPHDIS  660
SQIENFDLTP SSIPQNSTLA PLPGRECLVD QDGGSDPQNH FLFGVNIDSQ SLLMQDGIPS  720
LHNDNSSSTI PYSTSNFLSP SQDDYPLSQT LTTPGCLDES EYVPCSDNAD QVKRPPATFV  780
KVYKSGTVGR LLDITRFSSY HELRSEVGRL FGLEGQLEDP LRSGWQLVFV DREDDVLLVG  840
DDPWQEFVNS VSCIKILSPQ EVQQMGKPGI ELFSTSARRL GNSCDNYMSR QESRSLSTGI  900
ASVGSVEF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1602736451388Auxin response factor 5
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).
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 -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0705690.0AK070569.1 Oryza sativa Japonica Group cDNA clone:J023056C15, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015625706.10.0auxin response factor 6
RefseqXP_025879024.10.0auxin response factor 6
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLA0A0E0CG340.0A0A0E0CG34_9ORYZ; Auxin response factor
STRINGORGLA02G0045800.10.0(Oryza glaberrima)
STRINGOBART02G04960.10.0(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20123685
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.20.0auxin response factor 6
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]