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 OMERI06G24880.3
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: 910aa    MW: 100899 Da    PI: 6.1476
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI06G24880.3genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.72.5e-24130231199
                      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   ++
  OMERI06G24880.3 130 FCKTLTASDTSTHGGFSVPRRAAEKVfppldftQQPPAQ--ELIAKDLHGNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--WN 219
                      99*****************************86555544..8************************************************..77 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      ++ +l+++++r+
  OMERI06G24880.3 220 DNNQLLLGIRRA 231
                      77778***9997 PP
2Auxin_resp1187.5e-39256339183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      aahaast+s F+++YnPras+seFv++++k++ka++ +++svGmRf+m fete+ss rr++Gt++g+sdld  rWpnS+Wrs+k
  OMERI06G24880.3 256 AAHAASTNSRFTIFYNPRASPSEFVIPLSKYVKAVYhTRISVGMRFRMLFETEESSVRRYMGTITGISDLDAARWPNSHWRSVK 339
                      79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.35E-48115259IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.9E-43121245IPR015300DNA-binding pseudobarrel domain
CDDcd100171.80E-22129230No hitNo description
SMARTSM010191.8E-25130232IPR003340B3 DNA binding domain
PROSITE profilePS5086313.239130232IPR003340B3 DNA binding domain
PfamPF023628.3E-23130231IPR003340B3 DNA binding domain
PfamPF065074.2E-34256339IPR010525Auxin response factor
PfamPF023092.5E-8776864IPR033389AUX/IAA domain
SuperFamilySSF542772.22E-7776855No hitNo description
PROSITE profilePS5174523.1779863IPR000270PB1 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: 910 aa     Download sequence    Send to blast
MRLSSSSGSV LPAQAASPEA VEEQKCLNSE LWHACAGPLV SLPAVGSRVV YFPQGHSEQV  60
AASTNKEMES QIPNYPNLPP QLICQLHNAD AETDEVYAQM TLQPLSPQEL KDPYLPAELG  120
SANKQPTNYF CKTLTASDTS THGGFSVPRR AAEKVFPPLD FTQQPPAQEL IAKDLHGNEW  180
KFRHIFRGQP KRHLLTTGWS VFVSAKRLVA GDSVLFIWND NNQLLLGIRR ANRPQTVMPS  240
SVLSSDSMHI GLLAAAAHAA STNSRFTIFY NPRASPSEFV IPLSKYVKAV YHTRISVGMR  300
FRMLFETEES SVRRYMGTIT GISDLDAARW PNSHWRSVKV GWDESTAGER QPRVSLWEIE  360
PLTTFPMYPS PFPLRLKRPW PTGLPSLHGG KDDDLTSSLM WLRDSANPGF QSLNFGGLGM  420
SPWMQPRLDA SLLGLQPDMY QTIAATAFQD PTKQVSPTIL QFQQPQNIGG RANTLLPSQI  480
LQQVQPQFQQ QQYLQNINET TIQGHAQSEF LQQQLQRCQS FTEQKPQLQT QQQQQESQQQ  540
QSQCMQVPQH QQMQQQKNMT NYQSVPNALS PFSQLSSPSQ SSPMTLQTVL PFSQPQSYPD  600
TSMSSLSPSN TSTMHNALRP FSSEAPSHLS MPRPTAVPVP DPWSSKRVAV ESLLPSRPQV  660
TSQMEQLDST APSIQQSSAL APLPGRGCLV DQDGNSDPQN HLLFGVNIDS QSLLMQGGIP  720
SLQGENDSTT IPYSTSNFLG PSQNDFPLDQ TLSSADCLDE SGYVPCSQNS DQVINRPPAT  780
FVKVYKSGTY GRSLDITRFS SYHELRRELG RLFGLEGQLE NPLRSGWQLV FVDREDDVLL  840
VGDDPWQEFV NSVSCIKILS PQEVQQMGKP FELLSSAPGK RLGSSCDDYV SRQESRSLST  900
GIASVGSVEF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1552736051388Auxin 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
TrEMBLA0A0E0E5B30.0A0A0E0E5B3_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]