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.009G231800.1.p
Common NameSb09g028450, SORBIDRAFT_09g028450
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: 740aa    MW: 80854.1 Da    PI: 7.6664
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.009G231800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.91.1e-24171272199
                           EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                           f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv+ ++L +gD v+F 
  Sobic.009G231800.1.p 171 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyS-QQRPSQELVAKDLHGTEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFL 258
                           99****************************963.3445679************************************************ PP

                           E-SSSEE..EEEEE-S CS
                    B3  84 ldgrsefelvvkvfrk 99 
                             + +++el+++v+r+
  Sobic.009G231800.1.p 259 --RGDDGELRLGVRRA 272
                           ..3489999***9996 PP
2Auxin_resp111.39.5e-37297377182
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                           +aha++tksvF+++YnPr s+seF+++++k++k++++++s+G Rfkm++e++d+serr++G+++g+ d+dp  W++SkW++L
  Sobic.009G231800.1.p 297 VAHAVATKSVFHIYYNPRLSQSEFIIPYSKFMKSFSQQFSAGLRFKMRYESDDASERRCTGVIAGIGDADP-MWRGSKWKCL 377
                           79*********************************************************************.9********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.106.0E-41163274IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.09E-43164286IPR015300DNA-binding pseudobarrel domain
CDDcd100175.76E-23169271No hitNo description
PfamPF023621.4E-22171272IPR003340B3 DNA binding domain
SMARTSM010195.3E-23171273IPR003340B3 DNA binding domain
PROSITE profilePS5086313.493171273IPR003340B3 DNA binding domain
PfamPF065072.5E-31297377IPR010525Auxin 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:0010050Biological Processvegetative phase change
GO:0010158Biological Processabaxial cell fate specification
GO:0010582Biological Processfloral meristem determinacy
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 740 aa     Download sequence    Send to blast
MAGIDLNDTV EEDEEEAEPG NPACSQQSRT SSAATPPPPP LTPLLQPRPG AAVCLELWHA  60
CAGPVAPLPR KGTVVVYLPQ GHLEHLGDAA AAAAGGAPAP AALPPHVFCR VVDVTLHADA  120
STDEVYAQLA LVAENEDVAR RLRGGSEDGS AGDGDDGEAV KQRFSRMPHM FCKTLTASDT  180
STHGGFSVPR RAAEDCFPPL DYSQQRPSQE LVAKDLHGTE WRFRHIYRGQ PRRHLLTTGW  240
SAFVNKKKLV SGDAVLFLRG DDGELRLGVR RAAQLKNGSA FPALYNQCSN LGSLANVAHA  300
VATKSVFHIY YNPRLSQSEF IIPYSKFMKS FSQQFSAGLR FKMRYESDDA SERRCTGVIA  360
GIGDADPMWR GSKWKCLMVR WDDDVDFRRP NRISPWEIEL TSSVSGSHLS APNAKRLKPC  420
LPPDYLVPNG SGCPDFAESA QFHKVLQGQE LLGYRTRDNA AVATSQPCEA RNMQYIDERS  480
CSNNVSNSIP GVPRIGVRTP LGNPRFSYHC SGFGESPRFQ KVLQGQEVFQ PYRGTLVDPS  540
LRNSGFHQQD GSHVPTQANK WHPQLHGCAF RGTQAPAIPS QSSSPPSVLM FQRDNPKMSP  600
FEFGHCHMDK NEDMRAMFGH AGGIGRTEQT MMLQAHNVSG GMGNRDVTVE KFQPTVAVGR  660
DGSDNREVTK NSCKIFGISL TEKVPAIKEK DCGDTNYPSP FLSLKQHVPK SLGNSCATIH  720
EQRPVVGRVI DVSTVDMMI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1135240718361Auxin response factor 1
4ldw_A1e-1135240718361Auxin response factor 1
4ldw_B1e-1135240718361Auxin response factor 1
4ldx_A1e-1135240718361Auxin response factor 1
4ldx_B1e-1135240718361Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.126230.0embryo| panicle
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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00021PBMTransfer from AT2G33860Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.009G231800.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002440246.10.0auxin response factor 15
SwissprotQ8S9850.0ARFO_ORYSJ; Auxin response factor 15
TrEMBLC5YVJ40.0C5YVJ4_SORBI; Auxin response factor
STRINGSb09g028450.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP25373580
Representative plantOGRP66851018
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-159ARF 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. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]