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.008G126200.4
Common NameB456_008G126200
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: 629aa    MW: 70443.5 Da    PI: 6.5742
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.008G126200.4genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3598.4e-191231902998
                         -..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
                  B3  29 kkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                         + + +++lt +d++g +W++k+i+r++++r++lt+GW+ Fv +++L +gD +vF   + +++el+v+v+r
  Gorai.008G126200.4 123 QATPTQELTAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDAFVFL--RGDNGELRVGVRR 190
                         3344569************************************************..3489999****98 PP
2Auxin_resp103.62.4e-34216295183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         aaha+ t++ F v+Y+Pr+  s+F++ v+k+++a++++ svGmRfkm+fe+eds+err++Gt+vgv d++p +W++SkWrsLk
  Gorai.008G126200.4 216 AAHAVMTQTLFVVYYKPRT--SQFIIGVSKYLEAINNRSSVGMRFKMRFEGEDSPERRFTGTIVGVGDASP-HWSESKWRSLK 295
                         79****************6..9**********************************************999.*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086311.36490192IPR003340B3 DNA binding domain
SMARTSM010192.0E-991192IPR003340B3 DNA binding domain
SuperFamilySSF1019363.01E-23116219IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.9E-25117205IPR015300DNA-binding pseudobarrel domain
PfamPF023622.0E-16123190IPR003340B3 DNA binding domain
CDDcd100172.36E-14128190No hitNo description
PfamPF065079.8E-32216295IPR010525Auxin response factor
PfamPF023092.5E-7493549IPR033389AUX/IAA domain
SuperFamilySSF542779.16E-12510589No hitNo description
PROSITE profilePS5174525.71513605IPR000270PB1 domain
PfamPF023091.7E-5556592IPR033389AUX/IAA 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: 629 aa     Download sequence    Send to blast
MAQPEGIPRE TGLGVDDLYP ELWKLCAGPL VEIPHVQERV FYFPQGHIEQ LEASTNQELN  60
YEAPLFNLSS KILCRVLHVQ LLAEQETDEV YAQITLQPEP DQSELTSPDP FPTEVPERED  120
MNQATPTQEL TAKDLHGYEW RFKHIFRGQP RRHLLTTGWS TFVTSKRLVA GDAFVFLRGD  180
NGELRVGVRR LGNQQSTMPS SVISSQNMHL GVLATAAHAV MTQTLFVVYY KPRTSQFIIG  240
VSKYLEAINN RSSVGMRFKM RFEGEDSPER RFTGTIVGVG DASPHWSESK WRSLKIQWDE  300
PAMIQRPERV SPWEIEPFSA SASINLIQPA VKSKRPRPVY ILASDTTTNS TGSAFWCHGS  360
TKSHELARAG SIAEVQSSES SQVVWPMRQN EADAGYNTRA RLENAWPPSS LVNVSLNFFR  420
NPADASPVEL RTSNDVMRDQ VEKGKKLEIS TGCRLFGFNL TNSNSAVSGT VIAPSHIDEN  480
PETFQSPKQQ KQNASETSTK EIKAKHGTTS SMRTRTKVQM QGIAVGRAID LTVLKGYDDL  540
INELEKMFDI EGELRHRTKW SVVFTDNEGD MMLVGDDPWV GFCKMVRKIF IYSVDEVKKI  600
NGRCKFQASS LEGEGTVVSL GLEHRSGT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1361232013357Auxin response factor 1
4ldw_A1e-1361232013357Auxin response factor 1
4ldw_B1e-1361232013357Auxin response factor 1
4ldx_A1e-1361232013357Auxin response factor 1
4ldx_B1e-1361232013357Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1333337KRPRP
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX5778036e-83JX577803.1 Gossypium hirsutum clone NBRI_GE9702 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012437774.10.0PREDICTED: auxin response factor 18-like isoform X1
SwissprotQ9C5W90.0ARFR_ARATH; Auxin response factor 18
TrEMBLA0A0D2RED30.0A0A0D2RED3_GOSRA; Auxin response factor
STRINGGorai.008G126200.10.0(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G23980.10.0auxin response factor 9
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  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. 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]