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 Gorai.009G107800.1
Common NameB456_009G107800, LOC105768286
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family ARF
Protein Properties Length: 696aa    MW: 77078.6 Da    PI: 8.5215
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.009G107800.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.37e-24111212199
                         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  
  Gorai.009G107800.1 111 FAKTLTQSDANNGGGFSVPRYCAETIfprldytADPPVQ--TVIARDVHGEIWKFRHIYRGTPRRHLLTTGWSSFVNHKKLVAGDSIVFL- 198
                         89****************************997556555..8************************************************. PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                          + +++el+v+++r+
  Gorai.009G107800.1 199 -RAENGELCVGIRRA 212
                         .449999******97 PP
2Auxin_resp110.61.6e-36268350283
          Auxin_resp   2 ahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                         +  a+++++Fe+vY+Prast+eF+vk++ v++a++v+++  mRfkmafeted+s++++ +Gtv++v+ +dp+rWpnS+Wr+L+
  Gorai.009G107800.1 268 VGLAANGQPFEIVYYPRASTPEFCVKASVVRAAMRVPWCSLMRFKMAFETEDCSRISWfMGTVSSVHIADPLRWPNSPWRLLQ 350
                         56789****************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.5E-37104217IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.19E-29109214IPR015300DNA-binding pseudobarrel domain
CDDcd100172.71E-22110211No hitNo description
PfamPF023621.2E-21111212IPR003340B3 DNA binding domain
PROSITE profilePS5086313.098111213IPR003340B3 DNA binding domain
SMARTSM010198.0E-23111213IPR003340B3 DNA binding domain
PfamPF065072.3E-30268350IPR010525Auxin response factor
PROSITE profilePS5174516.542583663IPR000270PB1 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:0009738Biological Processabscisic acid-activated signaling pathway
GO:0009743Biological Processresponse to carbohydrate
GO:0010154Biological Processfruit development
GO:0031540Biological Processregulation of anthocyanin biosynthetic process
GO:0048366Biological Processleaf development
GO:0048441Biological Processpetal development
GO:0048442Biological Processsepal development
GO:0048589Biological Processdevelopmental growth
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: 696 aa     Download sequence    Send to blast
MRKEAEKSLD PQLWHACAGS MVQIPPVNSK VFYFPQGHAE HSLSPVDFSS SPPIPALVLC  60
RVASVKFLAD AETDEVYAKI MLVPLPNTEP DLENVAVLGG GSDNVEKPAS FAKTLTQSDA  120
NNGGGFSVPR YCAETIFPRL DYTADPPVQT VIARDVHGEI WKFRHIYRGT PRRHLLTTGW  180
SSFVNHKKLV AGDSIVFLRA ENGELCVGIR RAKRGNDTGA ESGLGNGNYV SPYGGFSGFL  240
KEDESKITRK GNPRGKGKVR AEAVVEAVGL AANGQPFEIV YYPRASTPEF CVKASVVRAA  300
MRVPWCSLMR FKMAFETEDC SRISWFMGTV SSVHIADPLR WPNSPWRLLQ VTWDEPDLLQ  360
NVERVSPWLV ELVPNMLPVH LSPFSTVTPR KKLRLPEHLD FPLVEQFPMP SFSGHPLRSS  420
NPLCCLSDNA PAGIQGARHA QVRLSSSDPH LNKLKSGLFP SGFQLFDPQA RVPNGISMTK  480
HTDSNDDNLS CLLTVGNSSP KKKSENGKRH QFLLFGQPIL TEQQLSRSCS TGVKTALENE  540
DKRKDYSNGS ESALENQLSP EKSFTTRLLW QQDYQAPEPG SATGHCKVFL ESEDVGRTLD  600
LTVLGSYEDL YMRLANMFGR ERSEMLGHVL YRDATGAVKQ TGDEPFSTFM KTVKRLNIRM  660
DSRNDTDGRS WLTGIRTAKN RLEGPNKRGP LSIFA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A6e-81937551391Auxin response factor 5
Search in ModeBase
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).
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF4670650.0EF467065.1 Gossypium hirsutum auxin response factor 3 (ARF3) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012443596.10.0PREDICTED: auxin response factor 10-like isoform X1
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A0D2RYA10.0A0A0D2RYA1_GOSRA; Auxin response factor
STRINGGorai.009G107800.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58027130
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G28350.10.0auxin response factor 10
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. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  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]