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.007G026900.1
Common NameB456_007G026900, LOC105801943
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: 697aa    MW: 77536.7 Da    PI: 6.6015
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.007G026900.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.46.6e-24130230198
                         EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                         f+kvlt sd++++g +++ +k+a+++     +++ + +++l+ +d++g +W++k+i+r++++r++lt+GW+ Fv +++L +gD++vF   +
  Gorai.007G026900.1 130 FCKVLTASDTSTHGGFSVLRKHATDClpkldMNDATPTQELVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDSFVFL--R 218
                         99****************************9555555669************************************************..4 PP

                         SSEE..EEEEE- CS
                  B3  87 rsefelvvkvfr 98 
                          +++el+v+v+r
  Gorai.007G026900.1 219 GENGELRVGVRR 230
                         49999*****98 PP
2Auxin_resp1041.8e-34256335183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         a+ha+st++ F v+Y+Pr+  s+F++ ++k+++al++k++vGmRfkm+fe+eds+err+sGt+vgv+d++p  W++SkWrsLk
  Gorai.007G026900.1 256 ASHAVSTQTLFVVYYKPRT--SQFIIGLNKYLEALSNKFAVGMRFKMKFEGEDSPERRFSGTIVGVEDFSP-LWKDSKWRSLK 335
                         789***************6..9*************************************************.9********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.1E-39122245IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.36E-40123259IPR015300DNA-binding pseudobarrel domain
CDDcd100171.49E-18128224No hitNo description
PROSITE profilePS5086312.167130232IPR003340B3 DNA binding domain
SMARTSM010191.6E-23130232IPR003340B3 DNA binding domain
PfamPF023625.0E-22130230IPR003340B3 DNA binding domain
PfamPF065079.2E-32256335IPR010525Auxin response factor
PfamPF023091.2E-6564620IPR033389AUX/IAA domain
SuperFamilySSF542772.06E-13584660No hitNo description
PROSITE profilePS5174527.02584665IPR000270PB1 domain
PfamPF023099.1E-7630669IPR033389AUX/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: 697 aa     Download sequence    Send to blast
MMANRVESFS QTNNVSSEGN GCDDLYMELW KLCAGPLVEV PRAEQRVYYF PQGHMEQLEA  60
STNQTLNQRI PLFNLPSKIL CRVVHIQLLA EKETDEVYAQ VTLLPEPSQP EPTTPDLCPP  120
ESQRPTVHSF CKVLTASDTS THGGFSVLRK HATDCLPKLD MNDATPTQEL VAKDLHGYEW  180
RFKHIFRGQP RRHLLTTGWS TFVTSKRLVA GDSFVFLRGE NGELRVGVRR VVRQHSIMPS  240
SVISSQSMHV GVLATASHAV STQTLFVVYY KPRTSQFIIG LNKYLEALSN KFAVGMRFKM  300
KFEGEDSPER RFSGTIVGVE DFSPLWKDSK WRSLKVQWDE PASIPRPDRV SPWEIEPFAA  360
PIPPSLTQPV AAKNKRPRPP AEIPAPDLSS TTSAPYSGVT HCHDLTPQNI AAEAKGNENP  420
VIGHHMWTEM SSGCSSVAKA LNKGSWLSSP GTCVPHHLFP DAREDKTRFS AWPVPSGFSN  480
PQLNEDSTFD STEKAKRSET AASCRLFGID LINHSTSSTP LERTPAQLST MIMGTEVPGP  540
STLSSTYSDQ KSEISKDSKE KKLEQLQLSA KENQSMQSCS SFTRSRTKVQ MQGIAVGRAV  600
DLAMFEGYGQ LIDELEEMFD IKGELRPRNK WEIVYTDDEG DMMLVGDDPW PEFCNMVRRI  660
FICSSQDVKK LKTGSKLPLA SIEGEGTVIS SDSSEN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-17493581355Auxin response factor 1
4ldw_A1e-17493581355Auxin response factor 1
4ldw_B1e-17493581355Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1374378KRPRP
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gra.12950.0flower| flowering
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269|PubMed:10476078}.
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
GenBankJX5850151e-31JX585015.1 Gossypium hirsutum clone NBRI_GE18462 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012488760.10.0PREDICTED: auxin response factor 9-like
SwissprotQ9XED80.0ARFI_ARATH; Auxin response factor 9
TrEMBLA0A0D2SCX50.0A0A0D2SCX5_GOSRA; Auxin response factor
STRINGGorai.007G026900.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM27642762
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. 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]