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.009G241900.1
Common NameB456_009G241900, LOC105770543
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: 579aa    MW: 63513.6 Da    PI: 6.8418
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.009G241900.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.85e-24118219199
                         EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                         f kvltpsd+++ g +++p+ +a++          ++ +  tl+++d +g +We+++iyr++++r++lt+GW++Fv++++L +gD+vvF++
  Gorai.009G241900.1 118 FAKVLTPSDANNGGGFSVPRFCADSVfppldynADPPVQ--TLSVTDVRGGVWEFRHIYRGTPRRHLLTTGWSKFVNQKKLIAGDSVVFMR 206
                         89*****************9999999****996445444..8************************************************4 PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                           + + +++++v+r+
  Gorai.009G241900.1 207 --DCNWKMFIGVRRA 219
                         ..4666778999885 PP
2Auxin_resp782.4e-26257340183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                         aa++a+ + +FevvY+Pra++++Fv ++  ve+ +++ +++G+R+kma+etedss+  + +Gtv++    d+  W +S+Wr+L+
  Gorai.009G241900.1 257 AAEKAARGFPFEVVYYPRAGWTDFVARAVLVEAGISTYWAAGTRVKMAVETEDSSRLAWfQGTVMSAAVPDSGPWIGSPWRMLQ 340
                         6889999***************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.2E-33109221IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.62E-28110222IPR015300DNA-binding pseudobarrel domain
CDDcd100172.59E-19117218No hitNo description
SMARTSM010192.1E-21118220IPR003340B3 DNA binding domain
PfamPF023623.0E-21118219IPR003340B3 DNA binding domain
PROSITE profilePS5086312.28118220IPR003340B3 DNA binding domain
PfamPF065071.2E-22257340IPR010525Auxin response factor
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
Sequence ? help Back to Top
Protein Sequence    Length: 579 aa     Download sequence    Send to blast
MPPSRSSPPE LRHVDPRIWR ACAGSSVQIP TVNSRVYYFP QGHLEQVCGS TPKLSSLVLS  60
RPLINCVISD VHYLADPRTD EVFAKLLLTP VETSRLPNQF LNVNGEVEDS DRNKIVSFAK  120
VLTPSDANNG GGFSVPRFCA DSVFPPLDYN ADPPVQTLSV TDVRGGVWEF RHIYRGTPRR  180
HLLTTGWSKF VNQKKLIAGD SVVFMRDCNW KMFIGVRRAM KAGEGGGDSG RWREPSDGGA  240
MKGEGRGRMT AEAVAEAAEK AARGFPFEVV YYPRAGWTDF VARAVLVEAG ISTYWAAGTR  300
VKMAVETEDS SRLAWFQGTV MSAAVPDSGP WIGSPWRMLQ VAWDEPEVLQ NARKVNPWQV  360
QISSSSPLHS SFPSEKRLKF SQDSGLADAE GEIFPISGLT NSTMGYLNPS LLNYNSFPAG  420
MQGARQYHFH LQSLTNDMSE NTPMMSTDNF SGNYVVPKPT RISTELNIGS SQSDNLSPDS  480
QSSMVSFGTE LIEHGGCNSS KVGVGSFRLF GKIIALKEPV RSRFDDVGCM DDVGGKRHDE  540
AVSEKNSLDL SLTYGCSKLL DRLDVQCQRA STFEGFSL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-661436551392Auxin response factor 5
Search in ModeBase
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012447242.10.0PREDICTED: auxin response factor 17-like
SwissprotQ84WU60.0ARFQ_ARATH; Auxin response factor 17
TrEMBLA0A0D2UT330.0A0A0D2UT33_GOSRA; Auxin response factor
STRINGGorai.009G241900.10.0(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
AT1G77850.11e-176auxin response factor 17
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]
  2. Shi ZH, et al.
    Overexpression of AtTTP affects ARF17 expression and leads to male sterility in Arabidopsis.
    PLoS ONE, 2015. 10(3): p. e0117317
    [PMID:25822980]
  3. de Lucas M, et al.
    Transcriptional Regulation of Arabidopsis Polycomb Repressive Complex 2 Coordinates Cell-Type Proliferation and Differentiation.
    Plant Cell, 2016. 28(10): p. 2616-2631
    [PMID:27650334]
  4. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]
  5. Wang B, et al.
    Fine regulation of ARF17 for anther development and pollen formation.
    BMC Plant Biol., 2017. 17(1): p. 243
    [PMID:29258431]
  6. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  7. Lin JS, et al.
    MicroRNA160 Modulates Plant Development and Heat Shock Protein Gene Expression to Mediate Heat Tolerance in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 68
    [PMID:29449855]