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 Cucsa.173460.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis
Family ARF
Protein Properties Length: 142aa    MW: 15847.5 Da    PI: 10.8896
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.173460.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B337.44.6e-126534899
                    EEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
              B3 48 vkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99
                    + +  +++++r++lt+GW+ Fv+a++L +gD+v+F   ++++ +l+++++r+
  Cucsa.173460.1  6 FVV--TGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--WNEKNQLLLGIRRA 53
                    455..8999***************************..8899999****997 PP

2Auxin_resp77.92.6e-2678137159
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrl 59 
                     aahaa+t+s F+v+YnPras+seFv+++ k++ka+  ++vsvGmRf+m fete+ss rr+
  Cucsa.173460.1  78 AAHAAATNSCFTVFYNPRASPSEFVIPLTKYVKAVFhTRVSVGMRFRMLFETEESSVRRY 137
                     79********************************86599*******************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086310.151154IPR003340B3 DNA binding domain
PfamPF023621.1E-9653IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.1E-16867IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.22E-141081IPR015300DNA-binding pseudobarrel domain
PfamPF065071.7E-2178137IPR010525Auxin response factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 142 aa     Download sequence    Send to blast
NMAYLFVVTG QPKRHLLTTG WSVFVSAKRL VAGDSVLFIW NEKNQLLLGI RRATRPQTVM  60
PSSVLSSDSM HIGLLAAAAH AAATNSCFTV FYNPRASPSE FVIPLTKYVK AVFHTRVSVG  120
MRFRMLFETE ESSVRRYCNF K*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-547137213343Auxin response factor 5
Search in ModeBase
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).
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKU3234070.0KU323407.1 UNVERIFIED: Trichosanthes dioica clone TdARF_5 auxin response factor 8-like mRNA, partial sequence.
GenBankKU3234210.0KU323421.1 UNVERIFIED: Trichosanthes dioica clone TdARF_29 auxin response factor 8-like mRNA, partial sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016182562.12e-79auxin response factor 8, partial
SwissprotQ0J9519e-75ARFL_ORYSJ; Auxin response factor 12
SwissprotQ258Y59e-75ARFL_ORYSI; Auxin response factor 12
TrEMBLA0A438BWE31e-81A0A438BWE3_VITVI; Auxin response factor
STRINGVIT_04s0079g00200.t016e-77(Vitis vinifera)
STRINGXP_008463127.17e-77(Cucumis melo)
STRINGXP_008381532.14e-79(Malus domestica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF1916422
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.14e-74auxin 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]