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 OPUNC01G30260.1
Organism
Oryza punctata
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: 652aa    MW: 71198.2 Da    PI: 7.9239
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OPUNC01G30260.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.52.9e-24191292199
                      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++       ++    s++l+ +d++g +W++++iyr++++r++lt+GW++Fv+ ++L  gD v+F   + 
  OPUNC01G30260.1 191 FCKTLTASDTSTHGGFSVPRRAAEDCfppldhkQLR--PSQELVAKDLHGAKWRFRHIYRGQPRRHLLTTGWSSFVNKKKLVLGDAVLFL--RG 280
                      99**************************99865444..4669************************************************..34 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      +++el+++v+r+
  OPUNC01G30260.1 281 DDGELRLGVRRA 292
                      89999****997 PP
2Auxin_resp113.51.9e-37317397182
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                      +a++++++svF++ YnPra++seFvv+++k++k+++++v++GmRfk++fe+ed++err +G+++gvs++dp+rWp+SkWrsL
  OPUNC01G30260.1 317 VADSLKHGSVFHISYNPRATASEFVVPYWKFVKSFSHPVCIGMRFKFHFESEDVNERR-AGMIAGVSEVDPIRWPGSKWRSL 397
                      578899****************************************************.9*********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019368.37E-47175330IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.3E-39186294IPR015300DNA-binding pseudobarrel domain
CDDcd100172.09E-23189291No hitNo description
PROSITE profilePS5086313.38191293IPR003340B3 DNA binding domain
PfamPF023621.6E-22191292IPR003340B3 DNA binding domain
SMARTSM010192.9E-24191293IPR003340B3 DNA binding domain
PfamPF065071.1E-30318397IPR010525Auxin response factor
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
Sequence ? help Back to Top
Protein Sequence    Length: 652 aa     Download sequence    Send to blast
MASSASSSSS PSSRPPLMAL PSFYRPPWPS ERGGEQRATD CWAGSPAAGG GRARVTTMGI  60
DLNNTASGGE EDAPAPAPVC RELWHACAGP VVSLPRRGSV VVYLPQGHLA AAGAGGGIRG  120
EVAVALPPHV ACRVVDVELC ADAATDEVYA RLALVAECEV FERNLHGGGI EREDDMEDGD  180
EERKSRMLHM FCKTLTASDT STHGGFSVPR RAAEDCFPPL DHKQLRPSQE LVAKDLHGAK  240
WRFRHIYRGQ PRRHLLTTGW SSFVNKKKLV LGDAVLFLRG DDGELRLGVR RATQLKNEAI  300
FKAFSSESSK MRTLSAVADS LKHGSVFHIS YNPRATASEF VVPYWKFVKS FSHPVCIGMR  360
FKFHFESEDV NERRAGMIAG VSEVDPIRWP GSKWRSLMVQ WEDATDCNSQ NRVSPWEIEI  420
VGGSVSVAHS LSASSSKRTK LCPQGNLDVP ALYGNGRPDS VETEKFPRVL QGQELMGSRT  480
HRVTCSPQSI NITKTKSRYE LKNYVCTPAT MNGLSSANEG YYLSLSTVPP SPPSRLMLYQ  540
TGVPQLELTT KNNEKSGNDS HPALPQHKLP GETSWDQFKI GKASTPGNTA NSGNDGREVG  600
RTSCRLFGFS LTEKIIPTDE GGEKEGGYET DCQNPRMLDL FGYNCTTPVI QT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-1027941919353Auxin response factor 1
4ldy_B1e-1027941919353Auxin 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 -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0723300.0AK072330.1 Oryza sativa Japonica Group cDNA clone:J023039P13, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015634503.10.0auxin response factor 3 isoform X2
SwissprotQ5JMM10.0ARFC_ORYSJ; Auxin response factor 3
TrEMBLA0A0E0JNT50.0A0A0E0JNT5_ORYPU; Auxin response factor
STRINGONIVA01G35630.10.0(Oryza nivara)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-146ARF family protein
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]
  2. Song X, et al.
    Rice RNA-dependent RNA polymerase 6 acts in small RNA biogenesis and spikelet development.
    Plant J., 2012. 71(3): p. 378-89
    [PMID:22443269]