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.003G142500.1
Common NameB456_003G142500
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: 717aa    MW: 79161.2 Da    PI: 8.3673
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.003G142500.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.81e-23108209199
                         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.003G142500.1 108 FAKTLTQSDANNGGGFSVPRYCAETIfppldytEDPPVQ--TVVAVDVHGETWKFRHIYRGTPRRHLLTTGWSTFVNHKKLVAGDSIVFLR 196
                         89****************************997666656..8************************************************4 PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                           ++++ l+v+++r+
  Gorai.003G142500.1 197 --SENGGLCVGIRRA 209
                         ..477778****996 PP
2Auxin_resp119.52.6e-39257340183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                         aa+ a+++++FevvY+Prast+eF+vk+++v++a++v+++ GmRfkmafetedss++++ +Gtv++v+ +dp+rWpnS+Wr+L+
  Gorai.003G142500.1 257 AATLAASGQPFEVVYYPRASTPEFCVKASSVKAAMRVPWCCGMRFKMAFETEDSSRISWfMGTVSSVQVVDPIRWPNSPWRLLQ 340
                         68899*****************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.1E-38100215IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.79E-29106210IPR015300DNA-binding pseudobarrel domain
CDDcd100178.06E-22107208No hitNo description
SMARTSM010197.3E-23108210IPR003340B3 DNA binding domain
PfamPF023621.3E-21108209IPR003340B3 DNA binding domain
PROSITE profilePS5086313.028108210IPR003340B3 DNA binding domain
PfamPF065075.3E-34257340IPR010525Auxin response factor
PROSITE profilePS5174511.849574652IPR000270PB1 domain
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: 717 aa     Download sequence    Send to blast
MKESDKSLDP QLWHACAGPM VQIPPLNSKV FYFPQGHAEH SLAAVDFPSS PPVPALVLCR  60
VASLKFMADT ETDEVYAKIL LMPLPNTELD LEHVAVFGSD NAEKPASFAK TLTQSDANNG  120
GGFSVPRYCA ETIFPPLDYT EDPPVQTVVA VDVHGETWKF RHIYRGTPRR HLLTTGWSTF  180
VNHKKLVAGD SIVFLRSENG GLCVGIRRAK RGTGNGPEAG SPFLSFLRED ESKMMMMNRN  240
GDWRGKGKLK AEAVLQAATL AASGQPFEVV YYPRASTPEF CVKASSVKAA MRVPWCCGMR  300
FKMAFETEDS SRISWFMGTV SSVQVVDPIR WPNSPWRLLQ VTWDEPDLLQ NVKRVSPWLV  360
ELVSNVPAVH LSPFSPPRKK SRFPQHLDFP LDGQFPMSAF SSNGNPHGTG CPLVLSDNAP  420
AGIQGARHAQ FGLSLSDLHL NNKLQSGLFL PGFQRFDPHS RISDGIMMAR RPNGTDNLSC  480
LLTIGNSNVN EKSGNTKRHQ FLLFGQPILT EQQLSRSCSS EVVSQVINGN SSLDGSAEKT  540
KDTSDGSRSS LEKSSTAGFL WHQDYRSTET GLDIGHCKVF LDSEDVGRTL DLSVLGSYEE  600
LYRRLANMFG IERSKMLGHV LYRDATGAVK QTGEEPFRYQ FKKPIHLFCS FDLALGLYLH  660
NLPMLYCSAF MKTAKRLTIR MDSSNETVAR SWLTGIRTAE NGLGGPSKRG PLSIFA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A4e-85836151388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gra.19120.0flower| flowering
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO626336040.0
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
GenBankDQ0036100.0DQ003610.1 Gossypium raimondii putative auxin response factor 10 (ARF10) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012471518.10.0PREDICTED: auxin response factor 10-like
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A0D2QKM00.0A0A0D2QKM0_GOSRA; Auxin response factor
STRINGGorai.003G142500.10.0(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]