PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID OMERI06G24880.2
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: 914aa    MW: 101368 Da    PI: 6.2107
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI06G24880.2genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.72.6e-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   ++
  OMERI06G24880.2 134 FCKTLTASDTSTHGGFSVPRRAAEKVfppldftQQPPAQ--ELIAKDLHGNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--WN 223
                      99*****************************86555544..8************************************************..77 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      ++ +l+++++r+
  OMERI06G24880.2 224 DNNQLLLGIRRA 235
                      77778***9997 PP
2Auxin_resp1187.6e-39260343183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      aahaast+s F+++YnPras+seFv++++k++ka++ +++svGmRf+m fete+ss rr++Gt++g+sdld  rWpnS+Wrs+k
  OMERI06G24880.2 260 AAHAASTNSRFTIFYNPRASPSEFVIPLSKYVKAVYhTRISVGMRFRMLFETEESSVRRYMGTITGISDLDAARWPNSHWRSVK 343
                      79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.49E-48119263IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.9E-43125249IPR015300DNA-binding pseudobarrel domain
CDDcd100171.81E-22133234No hitNo description
PROSITE profilePS5086313.239134236IPR003340B3 DNA binding domain
PfamPF023628.3E-23134235IPR003340B3 DNA binding domain
SMARTSM010191.8E-25134236IPR003340B3 DNA binding domain
PfamPF065074.3E-34260343IPR010525Auxin response factor
SuperFamilySSF542772.22E-7780859No hitNo description
PfamPF023092.5E-8780868IPR033389AUX/IAA domain
PROSITE profilePS5174523.1783867IPR000270PB1 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: 914 aa     Download sequence    Send to blast
MRLSSSSGSV LPAQAASPEA VEEQKCLNSE LWHACAGPLV SLPAVGSRVV YFPQGHSEQV  60
AASTNKEMES QIPNYPNLPP QLICQLHNVT MHADAETDEV YAQMTLQPLS PQELKDPYLP  120
AELGSANKQP TNYFCKTLTA SDTSTHGGFS VPRRAAEKVF PPLDFTQQPP AQELIAKDLH  180
GNEWKFRHIF RGQPKRHLLT TGWSVFVSAK RLVAGDSVLF IWNDNNQLLL GIRRANRPQT  240
VMPSSVLSSD SMHIGLLAAA AHAASTNSRF TIFYNPRASP SEFVIPLSKY VKAVYHTRIS  300
VGMRFRMLFE TEESSVRRYM GTITGISDLD AARWPNSHWR SVKVGWDEST AGERQPRVSL  360
WEIEPLTTFP MYPSPFPLRL KRPWPTGLPS LHGGKDDDLT SSLMWLRDSA NPGFQSLNFG  420
GLGMSPWMQP RLDASLLGLQ PDMYQTIAAT AFQDPTKQVS PTILQFQQPQ NIGGRANTLL  480
PSQILQQVQP QFQQQQYLQN INETTIQGHA QSEFLQQQLQ RCQSFTEQKP QLQTQQQQQE  540
SQQQQSQCMQ VPQHQQMQQQ KNMTNYQSVP NALSPFSQLS SPSQSSPMTL QTVLPFSQPQ  600
SYPDTSMSSL SPSNTSTMHN ALRPFSSEAP SHLSMPRPTA VPVPDPWSSK RVAVESLLPS  660
RPQVTSQMEQ LDSTAPSIQQ SSALAPLPGR GCLVDQDGNS DPQNHLLFGV NIDSQSLLMQ  720
GGIPSLQGEN DSTTIPYSTS NFLGPSQNDF PLDQTLSSAD CLDESGYVPC SQNSDQVINR  780
PPATFVKVYK SGTYGRSLDI TRFSSYHELR RELGRLFGLE GQLENPLRSG WQLVFVDRED  840
DVLLVGDDPW QEFVNSVSCI KILSPQEVQQ MGKPFELLSS APGKRLGSSC DDYVSRQESR  900
SLSTGIASVG SVEF
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).
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1032800.0AK103280.1 Oryza sativa Japonica Group cDNA clone:J033124L19, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015643843.10.0auxin response factor 17
SwissprotQ653U30.0ARFQ_ORYSJ; Auxin response factor 17
TrEMBLA0A0E0E5B10.0A0A0E0E5B1_9ORYZ; Auxin response factor
STRINGOMERI06G23200.10.0(Oryza meridionalis)
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]