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 Sobic.003G298600.1.p
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family ARF
Protein Properties Length: 686aa    MW: 74378 Da    PI: 7.1722
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.003G298600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B378.66.3e-25128229199
                           EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                           f+k+lt sd++++g +++p++ ae++       ++ +  s++l+ +d++g +W++++iyr++++r++lt+GW++Fv+ ++L +gD v+F
  Sobic.003G298600.1.p 128 FCKTLTASDTSTHGGFSVPRRAAEDCfppldynQLRP--SQELVAKDLHGTKWKFRHIYRGQPRRHLLTTGWSSFVNKKKLVSGDAVLF 214
                           99****************************9876665..459*********************************************** PP

                           EE-SSSEE..EEEEE-S CS
                    B3  83 kldgrsefelvvkvfrk 99 
                              + +++el+++v+r+
  Sobic.003G298600.1.p 215 L--RGDDGELRLGVRRA 229
                           *..3489999***9986 PP
2Auxin_resp93.63.1e-31254334182
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                           +a++++++svF++ YnPra++se++++++k++k+l+++v+vG R+ ++  +ed+serr sG+vv +s++dp++Wp+SkWrsL
  Sobic.003G298600.1.p 254 VADSLKHRSVFHISYNPRATASEYIIPYHKFLKSLNHPVCVGARINFQCHNEDVSERR-SGMVVRISEIDPMKWPGSKWRSL 334
                           578899****************************************************.9********************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.12E-45112266IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.9E-39123229IPR015300DNA-binding pseudobarrel domain
CDDcd100174.80E-23126228No hitNo description
PfamPF023628.0E-23128229IPR003340B3 DNA binding domain
PROSITE profilePS5086313.479128230IPR003340B3 DNA binding domain
SMARTSM010193.1E-24128230IPR003340B3 DNA binding domain
PfamPF065073.0E-26255334IPR010525Auxin response factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 686 aa     Download sequence    Send to blast
MGIDLNMVGG EGHDRRPPPP VSRELWHACA GPVVALPRRG SLVVYLPQGH LAAAGGGDVA  60
ADLPPHVVCR VADVELCADA ATDEVYARLA LVAEGEAFGR NLHGGGAEGD DDMEDLDAER  120
KSRMLHMFCK TLTASDTSTH GGFSVPRRAA EDCFPPLDYN QLRPSQELVA KDLHGTKWKF  180
RHIYRGQPRR HLLTTGWSSF VNKKKLVSGD AVLFLRGDDG ELRLGVRRAI QLKNEALFED  240
FSSDSTKRHT LSAVADSLKH RSVFHISYNP RATASEYIIP YHKFLKSLNH PVCVGARINF  300
QCHNEDVSER RSGMVVRISE IDPMKWPGSK WRSLLVRWED GAECNGQDRV SPWEIEVAGG  360
SVSVAHSLSA SSSKRTKLCA QGNLDVPTMY VTGNGCTDSV ETGKLPRVLQ GQELMGFRTR  420
HVPCAPQTAE AAKLQSSDAS RFLSNARDCA LSAPTSRLAV HNSGFTYQSV GFNESIGFSE  480
VLQGQEISRA VPMFQGMMSE ACSLKGGYGL HSYMHTPVAV NGLSAPAQEC CLTLSTPPGA  540
QVPSLYPDNI FNRTVVPQLG LASKFGGGGT NGQQSGPFDR RREIWTKPQH ETPDQMNLDQ  600
FETRRASAPG DAGKLGSGGG EVRKTSCRLF GFSLTEKILP ADDDGVKEVS YEPECQNPRM  660
LDLFGYNCST PSAALPALCA APIGM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A3e-921935749389Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.100390.0embryo| leaf
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.003G298600.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0664420.0BT066442.1 Zea mays full-length cDNA clone ZM_BFc0182A22 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021312617.10.0auxin response factor 3-like isoform X1
RefseqXP_021312618.10.0auxin response factor 3-like isoform X1
SwissprotQ5JMM10.0ARFC_ORYSJ; Auxin response factor 3
TrEMBLA0A1B6Q6380.0A0A1B6Q638_SORBI; Auxin response factor
STRINGSb03g034850.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP51132756
Representative plantOGRP1291845
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-143ARF 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]