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 OGLUM01G09880.1
Organism
Oryza glumaepatula
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: 660aa    MW: 73244.6 Da    PI: 5.5375
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OGLUM01G09880.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B369.73.8e-22122222198
                      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    ++
  OGLUM01G09880.1 122 FCKILTPSDTSTHGGFSVLRRHANEClppldmsMAT--PTQELITKDLHGSEWRFKHIYRGQPRRHLLTTGWSTFVTSKKLISGDAFVYL--RS 211
                      99****************************974333..3458999******************************************999..44 PP

                      SEE..EEEEE- CS
               B3  88 sefelvvkvfr 98 
                      +++e +v+v+r
  OGLUM01G09880.1 212 ETGEQRVGVRR 222
                      77778999997 PP
2Auxin_resp93.92.5e-31248329183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      a+ha++t+s+F v+Y+Pr s+s+++v+v+k+++a kv + vGmR+km+fe+ed++ +++sGt+vg  d  +++W++S+W+sLk
  OGLUM01G09880.1 248 ASHAIKTNSIFLVYYRPRLSQSQYIVSVNKYLAASKVGFNVGMRLKMSFEGEDVPVKKFSGTIVGEGD-LSLQWSGSEWKSLK 329
                      789*****************************************************************.566*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.53E-37113251IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.107.9E-36114237IPR015300DNA-binding pseudobarrel domain
CDDcd100172.36E-16120222No hitNo description
SMARTSM010191.1E-16122224IPR003340B3 DNA binding domain
PfamPF023629.0E-20122222IPR003340B3 DNA binding domain
PROSITE profilePS5086311.138122224IPR003340B3 DNA binding domain
PfamPF065074.5E-28248329IPR010525Auxin response factor
PfamPF023096.3E-7544592IPR033389AUX/IAA domain
SuperFamilySSF542772.5E-9552629No hitNo description
PROSITE profilePS5174525.447556645IPR000270PB1 domain
Gene3DG3DSA:3.10.20.2401.4E-4558621No 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: 660 aa     Download sequence    Send to blast
MSSQGAGGGV GDPELFAELW RACAGPLVEV PQRDERVFYF LQGHLEQLQE PTDPALLAEQ  60
IKMFQVPYKI LCKVVNVELK AETETDEVFA QITLQPDPDQ ENLPTLPDPP LPEQPRPVVH  120
SFCKILTPSD TSTHGGFSVL RRHANECLPP LDMSMATPTQ ELITKDLHGS EWRFKHIYRG  180
QPRRHLLTTG WSTFVTSKKL ISGDAFVYLR SETGEQRVGV RRLVQKQSTM PVSVISSQSM  240
HLGVLASASH AIKTNSIFLV YYRPRLSQSQ YIVSVNKYLA ASKVGFNVGM RLKMSFEGED  300
VPVKKFSGTI VGEGDLSLQW SGSEWKSLKV QWDEVTNVNG PERVSPWEIE TCDGTAPAIN  360
VPLQSATKNK RPREPSETID LQSLEPAQEF WLSGMPQQHE KTGIGSSEPN CISGHQVVWP  420
GEHPGYGAVT SNEARIATWP ARSAYQAEEP TSKLSSNTAA CGYRTEEVAP NASKVVEGKK  480
EPAMFRLFGV DLMKCTSIST TTDDKSSVGA GEASAKGTGS HEDSGQLSAF SKVTKEHIAA  540
DESPREIQSH QNYTARTRIK VQMHGNAVGR AVDLANLDGY EQLMNELEEM FNIKDLKQKW  600
KVAFTDDEGD TMEVGDDPWL EFCQMVRKIV LYPIEDEKKI EPHPKLLSSA NPEQDQKTGF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-15133507353Auxin response factor 1
4ldw_A1e-15133507353Auxin response factor 1
4ldw_B1e-15133507353Auxin response factor 1
4ldx_A1e-15133507353Auxin response factor 1
4ldx_B1e-15133507353Auxin 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
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
TrEMBLA0A0D9Y5S50.0A0A0D9Y5S5_9ORYZ; Auxin response factor
STRINGOGLUM01G09880.20.0(Oryza glumipatula)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G59750.40.0auxin 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]