PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Solyc09g007810.2.1
Common NameLOC101246373
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family ARF
Protein Properties Length: 695aa    MW: 76222.2 Da    PI: 7.0807
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc09g007810.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.31.4e-23121222199
                         EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                         f k+lt+sd+++ g +++p+ +ae++         ++ +  t+  +d +g++W++++iyr++++r++lt+GW+ Fv+ ++L +gD++vF  
  Solyc09g007810.2.1 121 FAKTLTQSDANNGGGFSVPRYCAETIfprldysADPPVQ--TILAKDVHGETWKFRHIYRGTPRRHLLTTGWSTFVNHKKLVAGDSIVFL- 208
                         89****************************996555555..89***********************************************. PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                          + +++ l+v+++r+
  Solyc09g007810.2.1 209 -RAENGDLCVGIRRA 222
                         .4488999****997 PP

2Auxin_resp1132.7e-37287370183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                         aa+ a+++++Fev+Y+Prast+eF+vk + v++al+++++ GmRfkm fetedss++++ +Gt+++v+ +dp+rWp+S+Wr+L+
  Solyc09g007810.2.1 287 AANLAASGQPFEVIYYPRASTPEFCVKSSLVKSALQIRWCSGMRFKMPFETEDSSRISWfMGTISSVQVSDPIRWPDSPWRLLQ 370
                         7899******************************************************************************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.9E-38112225IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.32E-29116223IPR015300DNA-binding pseudobarrel domain
CDDcd100173.65E-21120221No hitNo description
PROSITE profilePS5086313.112121223IPR003340B3 DNA binding domain
SMARTSM010191.7E-21121223IPR003340B3 DNA binding domain
PfamPF023628.7E-22121222IPR003340B3 DNA binding domain
PfamPF065072.4E-32287370IPR010525Auxin response factor
PROSITE profilePS5174519.717606686IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007389Biological Processpattern specification process
GO:0009734Biological Processauxin-activated signaling pathway
GO:0048829Biological Processroot cap development
GO:0051301Biological Processcell division
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 695 aa     Download sequence    Send to blast
MITFMDPKEK VKEVEKCLDS QLWHACAGSM VQMPSISSKV FYFPQGHSEH ASGNVDFRSS  60
IRIPSYIPCK VSAIKYMADP ETDEVFAKIR LIPVGRNEVE FDDDGVVGMN GSDNQDKPSS  120
FAKTLTQSDA NNGGGFSVPR YCAETIFPRL DYSADPPVQT ILAKDVHGET WKFRHIYRGT  180
PRRHLLTTGW STFVNHKKLV AGDSIVFLRA ENGDLCVGIR RAKRGIGGGP ETSSGWNPAG  240
GNCMVPYGGF SSFLREDENK LMRNGNGNNG GNLMNKGKVK AESVIEAANL AASGQPFEVI  300
YYPRASTPEF CVKSSLVKSA LQIRWCSGMR FKMPFETEDS SRISWFMGTI SSVQVSDPIR  360
WPDSPWRLLQ VTWDEPDLLQ NVKRVSPWLV ELVSNMPTIH LSPFSPPRKK LRLPQHPDFP  420
LDGHLPMPAF SGNHLLGPNS PFGCLPDNTP AGMQGARHAQ YGLSLSDLHF NKLHSSLFPV  480
GFPPLDQAAA APRRPLNSPM ISKPCNNENI SCLLTMGNSA HSTKKSDIGK APQLVLFGQP  540
ILTEQQISLS CSGDTVSTVR TGNSSSDGNA DKIGNVSDGS GSALNQRGLT ERSPCDTFQS  600
DPNTEIGHCK VFMESEDVGR TLDLSLLGSY EELCRKLANM FGIDNSEMLN HVLYRDTTGS  660
VKQLGDEPFS DFMKTARRLT ILTDSSSDNV GIRE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A6e-801839151388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.94309e-34leaf
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
MP00461DAPTransfer from AT4G30080Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc09g007810.2.1
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_004246657.10.0auxin response factor 18-like isoform X1
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A0V0IV600.0A0A0V0IV60_SOLCH; Auxin response factor
STRINGSolyc09g007810.2.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA59224115
Representative plantOGRP5261578
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.10.0auxin response factor 16
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. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  3. Huang J,Li Z,Zhao D
    Deregulation of the OsmiR160 Target Gene OsARF18 Causes Growth and Developmental Defects with an Alteration of Auxin Signaling in Rice.
    Sci Rep, 2016. 6: p. 29938
    [PMID:27444058]