PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Gorai.013G267100.1
Common NameB456_013G267100, LOC105783599
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: 662aa    MW: 72882.7 Da    PI: 8.2746
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.013G267100.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.11.4e-22111212199
                         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+vvF  
  Gorai.013G267100.1 111 FAKTLTQSDANNGGGFSVPRYCAETIfpaldysADPPVQ--TVVAVDVHGQLWKFRHIYRGTPRRHLLTTGWSAFVNRKKLVAGDSVVFL- 198
                         89****************************996555555..8************************************************. PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                          + +++  +v+++r+
  Gorai.013G267100.1 199 -RAENGGIRVGIRRA 212
                         .3477778****996 PP
2Auxin_resp1081e-35252329783
          Auxin_resp   7 tksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                          +++Fev Y+Pr+s +eF+vk++ v++a+k++++ GmRfkmafetedss++++  Gt+++v+ +dpvrWp+S+Wr+L+
  Gorai.013G267100.1 252 GRKPFEVAYYPRTSGPEFCVKASAVNTAMKIPWCCGMRFKMAFETEDSSRISWfVGTISSVQVADPVRWPDSPWRLLE 329
                         4689***********************************************************************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.7E-36103213IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.31E-28109212IPR015300DNA-binding pseudobarrel domain
CDDcd100176.64E-20110211No hitNo description
PROSITE profilePS5086312.534111213IPR003340B3 DNA binding domain
SMARTSM010191.2E-20111213IPR003340B3 DNA binding domain
PfamPF023621.6E-20111212IPR003340B3 DNA binding domain
PfamPF065071.5E-30252328IPR010525Auxin response factor
PROSITE profilePS5174518.507549629IPR000270PB1 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: 662 aa     Download sequence    Send to blast
MELEKSLDPN LWHACAGSMV QIPPINSKVY YFPQGHAEHS LNSVDFPFPR QIPPLVLCRV  60
DSVKFMADGE TDEVYAKIML TPLQNNEPDV GDDDGVSNGG CNNIEKKAAS FAKTLTQSDA  120
NNGGGFSVPR YCAETIFPAL DYSADPPVQT VVAVDVHGQL WKFRHIYRGT PRRHLLTTGW  180
SAFVNRKKLV AGDSVVFLRA ENGGIRVGIR RAKLGIGDGD CYGSLGFCGN SKGNGKVKPE  240
EVLEAAKAAS GGRKPFEVAY YPRTSGPEFC VKASAVNTAM KIPWCCGMRF KMAFETEDSS  300
RISWFVGTIS SVQVADPVRW PDSPWRLLEV TWDEPDLLQN VNRVNPWSVE LASNLPAIHL  360
SPFLRPMKKL RLPQHLDGLL VPSFPSKPLI PSSPLYRLSD NAPVGIQGAR QVQFGLPLSD  420
LHLKNNPHSG LCLSGLQRFD LHDRIPDTFT NSRNNLSCFL TMGNSNKSKN PKKCRFLLFG  480
QPILTEQQLS QSSSSEAVSE VVSGNSCKTK DSSDGSGSVI GNQFSPEKSS TAQFLWDRDN  540
RAIEPCMDTG HCKVFMESED VGRTLDLSVL DSYEDLYRRL ANMFGIDRSK MSEHVLYRDA  600
TGAIKRTGDE PFSAFTKIAK RLTIRMDSSN NTIERSRLTG TRTAENGFRG SNKTGPLSIV  660
A*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-79735051388Auxin 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
GenBankJX5857638e-70JX585763.1 Gossypium hirsutum clone NBRI_GE19427 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012464606.10.0PREDICTED: auxin response factor 18-like
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A0D2SKR00.0A0A0D2SKR0_GOSRA; Auxin response factor
STRINGGorai.013G267100.10.0(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]