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.006G262100.1.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: 820aa    MW: 91051.2 Da    PI: 6.3628
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.006G262100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.26.6e-23135236199
                           EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                           f+k+lt sd++++g +++p++ ae+        ++++++  +l+ +d +  +W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F
  Sobic.006G262100.1.p 135 FCKTLTASDTSTHGGFSVPRRAAERVfppldftQQPPAQ--ELIARDIHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLF 221
                           99***********************9*****86555544..8*********************************************** PP

                           EE-SSSEE..EEEEE-S CS
                    B3  83 kldgrsefelvvkvfrk 99 
                              ++++ +l+++++r+
  Sobic.006G262100.1.p 222 I--WNEKNQLLLGIRRA 236
                           *..8899999****997 PP
2Auxin_resp112.63.7e-37261344183
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                           aahaa+t+s F+++YnPras+seFv++++k+ ka+  +++svGmRf+m fete+ss rr++Gt++ vsd+dpvrWp S Wrs+k
  Sobic.006G262100.1.p 261 AAHAAATNSRFTIFYNPRASPSEFVIPLSKYIKAVFhTRISVGMRFRMLFETEESSVRRYMGTITEVSDADPVRWPSSYWRSVK 344
                           79*******************************986599******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019365.62E-48120264IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.1E-41127250IPR015300DNA-binding pseudobarrel domain
CDDcd100174.05E-21134235No hitNo description
PROSITE profilePS5086312.308135237IPR003340B3 DNA binding domain
SMARTSM010198.1E-24135237IPR003340B3 DNA binding domain
PfamPF023625.1E-21135236IPR003340B3 DNA binding domain
PfamPF065071.5E-32261344IPR010525Auxin response factor
SuperFamilySSF542773.2E-7720795No hitNo description
PROSITE profilePS5174524.037720804IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009733Biological Processresponse to auxin
GO:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 820 aa     Download sequence    Send to blast
MSSSSGASIG QPPPPPPAPP PEEEKKCLNS ELWHACAGPL VCLPTVGTRV VYFPQGHSEQ  60
VAASTNKEVD GHIPNYPNLP PQLICQLHDV TMHADVETDE VYAQMTLQPL NPQEQNDAYL  120
PAEMGIMSKQ PTNYFCKTLT ASDTSTHGGF SVPRRAAERV FPPLDFTQQP PAQELIARDI  180
HDVEWKFRHI FRGQPKRHLL TTGWSVFVSA KRLVAGDSVL FIWNEKNQLL LGIRRASRPQ  240
TVMPSSVLSS DSMHIGLLAA AAHAAATNSR FTIFYNPRAS PSEFVIPLSK YIKAVFHTRI  300
SVGMRFRMLF ETEESSVRRY MGTITEVSDA DPVRWPSSYW RSVKVGWDES TAGERPPRVS  360
LWEIEPLTTF PMYPSLFPLR VKHPWYSGVA ALHDDSNALM WLRGVAGEGG FQSLNFQSPG  420
IGSWGQQRLH PSLLSNDHDQ YQAVVAAAAA SQSGGYLKQQ FLHLQQPMQS PQEQCNLNPL  480
LQQQILQQAS QQQMVSPDAQ NIQSVLSPNA IQQQLHQLQQ MQHAHNDQKQ KIQPDQPYQV  540
PSSAVLPSPT SLPSHLREKF GFSDPNVNSS SFISSSSNEN MLESNFLQGS SKSVDLSRFN  600
QPVVSEQQQQ QQQQAWKQKF MGSQSMSFGG LVSLNSPTSK DGSADNKIGR DVQNQSLFSP  660
QVDSSSLLYN MVPNLTSNVA DNNISVIPSG STYLQSPMYG CLDDSSGLLQ NTGENDPAAR  720
TFVKVYKSGS VGRSLDITRF SNYAELREEL GQMFGIKGQL DDPDRSGWQL VFVDRENDVL  780
LLGDDPWESF VNSVWYIKIL SPEDVHKMGK PGNDPRYLS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1612436547388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.189980.0leaf
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).
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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00033PBMTransfer from AT5G37020Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.006G262100.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0714550.0AK071455.1 Oryza sativa Japonica Group cDNA clone:J023093B04, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021319501.10.0auxin response factor 12
RefseqXP_021319502.10.0auxin response factor 12
SwissprotQ0J9510.0ARFL_ORYSJ; Auxin response factor 12
SwissprotQ258Y50.0ARFL_ORYSI; Auxin response factor 12
TrEMBLA0A1B6PP060.0A0A1B6PP06_SORBI; Auxin response factor
STRINGPavir.Ga00205.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP58503039
Representative plantOGRP8561456
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]
  2. Qi Y, et al.
    OsARF12, a transcription activator on auxin response gene, regulates root elongation and affects iron accumulation in rice (Oryza sativa).
    New Phytol., 2012. 193(1): p. 109-20
    [PMID:21973088]
  3. Shen WJ,Ruan XL,Li XS,Zhao Q,Li HP
    RNA silencing suppressor Pns11 of rice gall dwarf virus induces virus-like symptoms in transgenic rice.
    Arch. Virol., 2012. 157(8): p. 1531-9
    [PMID:22592958]
  4. Wang S, et al.
    Auxin response factor (OsARF12), a novel regulator for phosphate homeostasis in rice (Oryza sativa).
    New Phytol., 2014. 201(1): p. 91-103
    [PMID:24111723]
  5. Fan J, et al.
    Infection of Ustilaginoidea virens intercepts rice seed formation but activates grain-filling-related genes.
    J Integr Plant Biol, 2015. 57(6): p. 577-90
    [PMID:25319482]