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.003G078000.2
Common NameB456_003G078000, LOC105788203
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: 695aa    MW: 77633.7 Da    PI: 6.558
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.003G078000.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3772e-24129229198
                         EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                         f+kvlt sd++++g +++ +k+a+e+     +++ + +++l+ +d++g +W++k+i+r++++r++lt+GW+ Fv +++L +gD++vF   +
  Gorai.003G078000.2 129 FCKVLTASDTSTHGGFSVLRKHATEClppldMNQATPTQELVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDSFVFL--R 217
                         99****************************9555556679************************************************..4 PP

                         SSEE..EEEEE- CS
                  B3  87 rsefelvvkvfr 98 
                          +++el+v+v+r
  Gorai.003G078000.2 218 GESGELRVGVRR 229
                         49999*****98 PP
2Auxin_resp105.75.4e-35255334183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         a+ha+st++ F v+Y+Pr+  s+F++ ++k+++al++k++vGmRfkm+fe+eds+err+sGt+vgv+d++p  W++SkWrsLk
  Gorai.003G078000.2 255 ASHAVSTQTLFVVYYKPRT--SQFIIGLNKYLEALNNKFTVGMRFKMRFEGEDSPERRFSGTIVGVEDFSP-YWKDSKWRSLK 334
                         789***************6..9*************************************************.9********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.79E-40120258IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.7E-40122244IPR015300DNA-binding pseudobarrel domain
CDDcd100171.55E-20128229No hitNo description
PfamPF023621.8E-22129229IPR003340B3 DNA binding domain
SMARTSM010191.8E-23129231IPR003340B3 DNA binding domain
PROSITE profilePS5086312.266129231IPR003340B3 DNA binding domain
PfamPF065071.4E-32255334IPR010525Auxin response factor
PfamPF023095.7E-13546666IPR033389AUX/IAA domain
SuperFamilySSF542771.77E-15574657No hitNo description
PROSITE profilePS5174528.257581662IPR000270PB1 domain
Gene3DG3DSA:3.10.20.2408.0E-4604655No 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: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
MANRGGVFSQ TNNVSSEGNG GDDLYMELWK LCAGPLVEAP RARERVYYFP QGHMEQLEAS  60
TNQELNQRIP LFNLPSKILC SVVHIQFLAE QETDEVYAQI TLMPEPNQPE PTTPDACPPE  120
PPKPTVCSFC KVLTASDTST HGGFSVLRKH ATECLPPLDM NQATPTQELV AKDLHGYEWR  180
FKHIFRGQPR RHLLTTGWST FVTSKRLVAG DSFVFLRGES GELRVGVRRV ARQQSSMPTS  240
VISSQSMHLG VLATASHAVS TQTLFVVYYK PRTSQFIIGL NKYLEALNNK FTVGMRFKMR  300
FEGEDSPERR FSGTIVGVED FSPYWKDSKW RSLKVQWDEP ASIPRPDRVS PWEIEPFAAP  360
IPPTLGQPVA AKNKRPRPTA EIPALELPST ASAPWNSGVM HTHDLMRRNI TAEANRNENH  420
VIWHMQTEMS SSCSSVLKTQ NEGSWLSSPC MSVSKHRFPD ARDDSKCASG WPVLSGLSNP  480
QVNNDSTFDP IEKVKKSETA SSCRLFGIEL INHSASSRQL ERTPTQLSTM TASTAEGHHT  540
LSPNNSCQKS EISKDSNEKQ EQLQLQAKEI QSRQSCPSST RSRTKVQMQG VAVGRAVDLA  600
MLEGYDQLID ELEEMFDIKG ELRPRNKWEI VYTDDEGDMM LVGDDPWQEF CSMVRRIFIC  660
LSQDVKKLST GSKLPMACIE GGEGTVISSE SIEN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-175123574355Auxin response factor 1
4ldw_A1e-175123574355Auxin response factor 1
4ldw_B1e-175123574355Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1373377KRPRP
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269|PubMed:10476078}.
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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. {ECO:0000269|PubMed:12036261}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX5850155e-53JX585015.1 Gossypium hirsutum clone NBRI_GE18462 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012470429.10.0PREDICTED: auxin response factor 9 isoform X2
SwissprotQ9XED80.0ARFI_ARATH; Auxin response factor 9
TrEMBLA0A0D2NY140.0A0A0D2NY14_GOSRA; Auxin response factor
STRINGGorai.003G078000.10.0(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G23980.10.0auxin response factor 9
Publications ? help Back to Top
  1. 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]