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.009G231800.2.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: 574aa    MW: 63788.2 Da    PI: 9.1589
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.009G231800.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B378.47.5e-255106199
                           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.009G231800.2.p   5 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyS-QQRPSQELVAKDLHGTEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFL 92 
                           99****************************963.3445679************************************************ PP

                           E-SSSEE..EEEEE-S CS
                    B3  84 ldgrsefelvvkvfrk 99 
                             + +++el+++v+r+
  Sobic.009G231800.2.p  93 --RGDDGELRLGVRRA 106
                           ..3489999***9996 PP
2Auxin_resp111.86.6e-37131211182
            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.009G231800.2.p 131 VAHAVATKSVFHIYYNPRLSQSEFIIPYSKFMKSFSQQFSAGLRFKMRYESDDASERRCTGVIAGIGDADP-MWRGSKWKCL 211
                           79*********************************************************************.9********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.0E-402108IPR015300DNA-binding pseudobarrel domain
CDDcd100174.95E-233105No hitNo description
SuperFamilySSF1019365.36E-433121IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.4935107IPR003340B3 DNA binding domain
SMARTSM010195.3E-235107IPR003340B3 DNA binding domain
PfamPF023629.3E-235106IPR003340B3 DNA binding domain
PfamPF065071.7E-31131211IPR010525Auxin 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: 574 aa     Download sequence    Send to blast
MPHMFCKTLT ASDTSTHGGF SVPRRAAEDC FPPLDYSQQR PSQELVAKDL HGTEWRFRHI  60
YRGQPRRHLL TTGWSAFVNK KKLVSGDAVL FLRGDDGELR LGVRRAAQLK NGSAFPALYN  120
QCSNLGSLAN VAHAVATKSV FHIYYNPRLS QSEFIIPYSK FMKSFSQQFS AGLRFKMRYE  180
SDDASERRCT GVIAGIGDAD PMWRGSKWKC LMVRWDDDVD FRRPNRISPW EIELTSSVSG  240
SHLSAPNAKR LKPCLPPDYL VPNGSGCPDF AESAQFHKVL QGQELLGYRT RDNAAVATSQ  300
PCEARNMQYI DERSCSNNVS NSIPGVPRIG VRTPLGNPRF SYHCSGFGES PRFQKVLQGQ  360
EVFQPYRGTL VDPSLRNSGF HQQDGSHVPT QANKWHPQLH GCAFRGTQAP AIPSQSSSPP  420
SVLMFQRDNP KMSPFEFGHC HMDKNEDMRA MFGHAGGIGR TEQTMMLQAH NVSGGMGNRD  480
VTVEKFQPTV AVGRDGSDNR EVTKNSCKIF GISLTEKVPA IKEKDCGDTN YPSPFLSLKQ  540
HVPKSLGNSC ATIHEQRPVV GRVIDVSTVD MMI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A9e-903241122361Auxin response factor 1
4ldw_A9e-903241122361Auxin response factor 1
4ldw_B9e-903241122361Auxin 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.009G231800.2.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)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-122ARF 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]