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.012G004800.1
Common NameB456_012G004800, LOC105780565
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: 675aa    MW: 74851.3 Da    PI: 7.018
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.012G004800.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.41.4e-23120220198
                         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.012G004800.1 120 FAKTLTQSDANNGGGFSVPRYCAETIfprldysAEPPVQ--TIHAKDVHGNVWKFRHIYRGTPRRHLLTTGWSNFVNHKKLVAGDSIVFL- 207
                         89****************************986545445..8************************************************. PP

                         -SSSEE..EEEEE- CS
                  B3  85 dgrsefelvvkvfr 98 
                          + +++ l+v+++r
  Gorai.012G004800.1 208 -RAENGDLCVGIRR 220
                         .4488889****98 PP
2Auxin_resp110.22.1e-36276359183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                         a+++a+++++FevvY+Prast+eF+vk+++v++a+++++ +GmRfkmafetedss++++ +Gt++  + +dp+rWpnS+Wr+L+
  Gorai.012G004800.1 276 AVTRAANGQPFEVVYYPRASTPEFCVKASSVRTATQIHWYPGMRFKMAFETEDSSRISWfMGTISIAQVVDPIRWPNSPWRLLQ 359
                         67899*****************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.106.8E-38115224IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019368.24E-30118234IPR015300DNA-binding pseudobarrel domain
CDDcd100175.61E-23118220No hitNo description
PROSITE profilePS5086312.689120222IPR003340B3 DNA binding domain
PfamPF023621.0E-21120220IPR003340B3 DNA binding domain
SMARTSM010197.1E-22120222IPR003340B3 DNA binding domain
PfamPF065071.6E-31276359IPR010525Auxin response factor
PROSITE profilePS5174512.495588666IPR000270PB1 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: 675 aa     Download sequence    Send to blast
MITVMDCRKE VVKTSEKCLD PQLWHACAGN MVQMPAVNSK VFYFPQGHAE HANRNVDFGS  60
LLIPSLILCR ISAIKFMADP ETDEVYAKIM LVPLRENDFG YEDGFDGNIG MENLEKPPSF  120
AKTLTQSDAN NGGGFSVPRY CAETIFPRLD YSAEPPVQTI HAKDVHGNVW KFRHIYRGTP  180
RRHLLTTGWS NFVNHKKLVA GDSIVFLRAE NGDLCVGIRR VKRGIGSGHE YPSSWNLGDG  240
SSGYSPLLRE GESKSMRNDS NGDLRGRIRP ENVIEAVTRA ANGQPFEVVY YPRASTPEFC  300
VKASSVRTAT QIHWYPGMRF KMAFETEDSS RISWFMGTIS IAQVVDPIRW PNSPWRLLQV  360
AWDEPDLLHD VKRVSPWLVE LVTNIPAIHL NPFSPPRKRM RLPQHPDFSL LGQIPMPSFS  420
DSTFRSSSPA CCITNNIPGG IQGARHAPFG LSSSDLRSSK LQSGLFPHGF NQLDHTIPPM  480
GHSSDYGNNR NISSSPAMGN LTQSLKESNE IKTPHILLFG QLIFCEQQVS QSCSDTIGNS  540
SSNGNTEKTM ISSDASGSAL HQNARENSSD EGSPWYKELP KTNMGLETGH CQVFTESENV  600
GRTLDLSVLR SYEELHGNLA NMFGVKSSDM LSNVFYHDAA ASVKHTGDEP FSEFLKTARR  660
LTVLTDSGSD NMGR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-78138033388Auxin 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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012460416.10.0PREDICTED: auxin response factor 18-like
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A0D2UZW70.0A0A0D2UZW7_GOSRA; Auxin response factor
STRINGGorai.012G004800.10.0(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]