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.006G166400.1
Common NameB456_006G166400, LOC105799779
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: 709aa    MW: 78016.2 Da    PI: 7.235
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.006G166400.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.23.2e-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  
  Gorai.006G166400.1 121 FAKTLTQSDANNGGGFSVPRYCAETIfprldysADPPVQ--TILAKDVHGETWKFRHIYRGTPRRHLLTTGWSTFVNHKKLVAGDSIVFL- 208
                         89****************************996555555..89***********************************************. PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                          + +++ l+++++r+
  Gorai.006G166400.1 209 -RAENGDLCIGIRRA 222
                         .4488889****996 PP
2Auxin_resp114.21.2e-37290373183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                         aa+ as+++ FevvY+Prast+eF+vk++ v++al+++++ GmRfkmafetedss++++ +Gt+++v+ +dp++Wp+S+Wr+L+
  Gorai.006G166400.1 290 AATLASNGQQFEVVYYPRASTPEFCVKASLVKAALQIRWCSGMRFKMAFETEDSSRISWfMGTISSVQVADPLHWPDSPWRLLQ 373
                         6899******************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.1E-37114225IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.19E-29115224IPR015300DNA-binding pseudobarrel domain
CDDcd100176.78E-21120221No hitNo description
PfamPF023621.9E-21121222IPR003340B3 DNA binding domain
PROSITE profilePS5086313.028121223IPR003340B3 DNA binding domain
SMARTSM010195.7E-21121223IPR003340B3 DNA binding domain
PfamPF065078.9E-33290373IPR010525Auxin response factor
PROSITE profilePS5174521.481615695IPR000270PB1 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: 709 aa     Download sequence    Send to blast
MITFMESKEK PKEMEKCLDS QLWHACAGGM VQMPSVNTKV FYFPQGHSEH ACGTVDFRNC  60
PRIQAYILCR VAAVKFMADP ETDEVFAKIR LIPVNTNDPD FEDDGIGSIN GNETQEKPAS  120
FAKTLTQSDA NNGGGFSVPR YCAETIFPRL DYSADPPVQT ILAKDVHGET WKFRHIYRGT  180
PRRHLLTTGW STFVNHKKLV AGDSIVFLRA ENGDLCIGIR RAKRGIGGGP ESSTGWNATA  240
GNCMIPYGGF SAFLREDEGK LMRNGSSNGV SSNGNLMGKR KVRTEQVIEA ATLASNGQQF  300
EVVYYPRAST PEFCVKASLV KAALQIRWCS GMRFKMAFET EDSSRISWFM GTISSVQVAD  360
PLHWPDSPWR LLQVTWDEPD LLQNVKRVSP WLVELVSNMP AIHLSPFSPP RKKLRLPQHS  420
DFHLDGQLPM PTFSGNLLGA SNPFGCLPNT APAGMQGARH AHYGLSLSDL HLNKLQSGLF  480
PASFPPLDYA PVPNRTSNGG PNIRKPSMSE NVSCVLTMSH PSQNTKKADG AKTPQLVLFG  540
RPILTEQQIS LSCSGDTISP VLTGNSSSEY LDKAANFSDG SGSALHQQGL PERASCEGLP  600
WYKNSRQETE PNLETGHCKV FMESEDVGRT LDLSLLGSYD ELQRKLADMF GIENSETLSH  660
LLYRDATGAV KQIGEEPFSD FMKTARRLTI LTDSSSDNVG EYRGRSKP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A3e-81839441388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gra.11460.0flower|seedling| flowering
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012485958.10.0PREDICTED: auxin response factor 18-like
RefseqXP_012485960.10.0PREDICTED: auxin response factor 18-like
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A0D2QBG00.0A0A0D2QBG0_GOSRA; Auxin response factor
STRINGGorai.006G166400.10.0(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
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. 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]