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.006G255300.3.p
Common NameSb06g031900, SORBIDRAFT_06g031900
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: 947aa    MW: 103750 Da    PI: 6.2128
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.006G255300.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.61.2e-23143244199
                           EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                           f+k lt sd++++g +++p++ ae+       ++++++ ++l+++d++ + W++++iyr++++r++lt+GW+ Fv a++Lk+gD+v+F 
  Sobic.006G255300.3.p 143 FCKNLTASDTSTHGGFSVPRRAAEKLfpqldySMQPPN-QELIVRDLHDNMWTFRHIYRGQPKRHLLTTGWSLFVGAKRLKAGDSVLFI 230
                           89*********************999*****9555555.49************************************************ PP

                           E-SSSEE..EEEEE-S CS
                    B3  84 ldgrsefelvvkvfrk 99 
                             ++++ +l+v+v+r+
  Sobic.006G255300.3.p 231 --RDEKSQLLVGVRRA 244
                           ..4577778*****97 PP
2Auxin_resp110.32e-36269351183
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                           aahaas++  F+++YnPr+s+s Fv+++++++ka++ + svGmRf m+fete+s +rr++Gt+vg+sd+dp+rWpnSkWr+L+
  Sobic.006G255300.3.p 269 AAHAASSGGSFTIYYNPRTSPSPFVIPLARYNKATYLQPSVGMRFAMMFETEESIKRRCTGTIVGISDYDPMRWPNSKWRNLQ 351
                           79*******************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019368.63E-45133272IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.105.1E-41136257IPR015300DNA-binding pseudobarrel domain
CDDcd100174.02E-21142243No hitNo description
PfamPF023623.4E-21143244IPR003340B3 DNA binding domain
SMARTSM010197.1E-23143245IPR003340B3 DNA binding domain
PROSITE profilePS5086312.83143245IPR003340B3 DNA binding domain
PfamPF065073.9E-32269351IPR010525Auxin response factor
PROSITE profilePS5174523.418843927IPR000270PB1 domain
PfamPF023097.6E-9845930IPR033389AUX/IAA domain
SuperFamilySSF542774.38E-8862922No 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:0009908Biological Processflower development
GO:0009942Biological Processlongitudinal axis specification
GO:0010305Biological Processleaf vascular tissue pattern formation
GO:0048364Biological Processroot development
GO:0048507Biological Processmeristem development
GO:0005634Cellular Componentnucleus
GO:0016020Cellular Componentmembrane
GO:0042802Molecular Functionidentical protein binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 947 aa     Download sequence    Send to blast
MASAQEKATS GVLRNAAALL DEMQLMGETQ GAKKVINSEL WHACAGPLVC LPQRGSLVYY  60
FPQGHSEQVA ATTKKIPNSR IPNYPSLPSQ LLCQVHNITL HADKETDEIY AQMTLQPVHS  120
ETDVFPIPSL GAYTKSKHPT EYFCKNLTAS DTSTHGGFSV PRRAAEKLFP QLDYSMQPPN  180
QELIVRDLHD NMWTFRHIYR GQPKRHLLTT GWSLFVGAKR LKAGDSVLFI RDEKSQLLVG  240
VRRATRQQPA LSSSVLSTDS MHIGVLAAAA HAASSGGSFT IYYNPRTSPS PFVIPLARYN  300
KATYLQPSVG MRFAMMFETE ESIKRRCTGT IVGISDYDPM RWPNSKWRNL QVEWDEHGYG  360
ERPERVSLWD IETPENMVFP SPLNSKRQCL PSYAVPGLQI GSVNMSSIPR AQGSPFGNLQ  420
QMPGSGSDLA LLLLNQSGQN LGSPIACQQS SFSSIIQNAK HSYFPPSTFG ASTGSMKQET  480
MPSNEAPQQL NALGIQKGDQ VSCEVQPGID SISAREMSVK PRGPRSTDSY SSQSISDQNG  540
KGEPRTKSRR SKKSSSHKTI SDKSELSSLP SQICDKQRHG SEPTLVDCGA EQATCGNIED  600
SSGAPTRGDF AGELQVLEVE QHELLSPPKL ESSKSPDGGK SVSSFPNQGC FSQFLEGLDW  660
MIPPSYYQDS NGIQSATASD NIFNPSEGIP SAMNTDGMEA FQTSCLSECF PNSIQEFINS  720
PDINTLTFMS PEMQHLDAQH DGSNLPSTSN SYVQMSFSEE SQSASLSGLH MEAIHINSSC  780
SQPLATGSFD AGTFSKLSNM KECQALPLQE IHNGSMGTPS CSMDAAAEYS MDRSVKPMKP  840
PVRTYTKVQK LGSVGRSIDV TRFRDYHELR SAIACMFGLQ GKLEHPGGSD WKLVYVDYEN  900
DVLLVGDDPW EEFINCVRCI RILSPSEVQQ MSENGVHVLN DCIQIA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A0.01737431390Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.129260.0callus
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
MP00153DAPTransfer from AT1G19850Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.006G255300.3.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
GenBankBT0666320.0BT066632.1 Zea mays full-length cDNA clone ZM_BFb0041D15 mRNA, complete cds.
GenBankJX4285060.0JX428506.1 Zea mays subsp. mays clone pUT3104 ARF4 transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002448710.10.0auxin response factor 11 isoform X1
SwissprotQ01K260.0ARFK_ORYSI; Auxin response factor 11
SwissprotQ8S9830.0ARFK_ORYSJ; Auxin response factor 11
TrEMBLC5Y9Z00.0C5Y9Z0_SORBI; Auxin response factor
STRINGSb06g031900.10.0(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19850.10.0ARF family protein
Publications ? help Back to Top
  1. Shen C, et al.
    Functional analysis of the structural domain of ARF proteins in rice (Oryza sativa L.).
    J. Exp. Bot., 2010. 61(14): p. 3971-81
    [PMID:20693412]
  2. Indoliya Y, et al.
    Decoding regulatory landscape of somatic embryogenesis reveals differential regulatory networks between japonica and indica rice subspecies.
    Sci Rep, 2016. 6: p. 23050
    [PMID:26973288]