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.008G097200.1
Common NameB456_008G097200, LOC105763606
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: 887aa    MW: 98552.5 Da    PI: 6.4732
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.008G097200.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.62.3e-23132233199
                         EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                         f+k+lt sd++++g +++p++ ae+       +++++  ++l+ +d++ ++W++++ +r++++r++lt+GW+ Fv+a++L +gD+v+F   
  Gorai.008G097200.1 132 FCKTLTASDTSTHGGFSVPRRAAEKVfppldySLQPPA-QELVARDLHENEWKFRHVFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI-- 219
                         99***********************9*****9777766.49************************************************.. PP

                         SSSEE..EEEEE-S CS
                  B3  86 grsefelvvkvfrk 99 
                         ++++ +l+++++r+
  Gorai.008G097200.1 220 WNEKNQLLLGIRRA 233
                         8899999****997 PP
2Auxin_resp1201.8e-39258341183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         aahaa+t+s F+++YnPras+seFv++++k++ka++ ++vsvGmRf+m fete+ss rr++Gt++g+sdldp rWpnS+Wrs+k
  Gorai.008G097200.1 258 AAHAAATNSRFTIFYNPRASPSEFVIPLAKYVKAVYyTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPGRWPNSHWRSVK 341
                         79*********************************989*******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.06E-47117261IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.5E-41125247IPR015300DNA-binding pseudobarrel domain
CDDcd100172.25E-21131232No hitNo description
PfamPF023621.5E-21132233IPR003340B3 DNA binding domain
SMARTSM010191.9E-24132234IPR003340B3 DNA binding domain
PROSITE profilePS5086312.506132234IPR003340B3 DNA binding domain
PfamPF065075.4E-34258341IPR010525Auxin response factor
PfamPF023091.5E-5776862IPR033389AUX/IAA domain
SuperFamilySSF542779.16E-7776854No hitNo description
PROSITE profilePS5174522.027780864IPR000270PB1 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: 887 aa     Download sequence    Send to blast
MRLSSSGFNQ QTEEDFCTGE KKCLNSELWH ACAGPLVSLP PVGSRVVYFP QGHSEQVAAS  60
TNKEVDAHIP NYPSLPPQLI CQLHNVTMHA DVETDEVYAQ MTLQPLSPQE QKNVFLLPAE  120
LGTPSKQPTN YFCKTLTASD TSTHGGFSVP RRAAEKVFPP LDYSLQPPAQ ELVARDLHEN  180
EWKFRHVFRG QPKRHLLTTG WSVFVSAKRL VAGDSVLFIW NEKNQLLLGI RRANRPQTVM  240
PSSVLSSDSM HIGLLAAAAH AAATNSRFTI FYNPRASPSE FVIPLAKYVK AVYYTRVSVG  300
MRFRMLFETE ESSVRRYMGT ITGISDLDPG RWPNSHWRSV KVGWDESTAG EKQPRVSLWE  360
IEPLTTFPMY SSPFPLRLKR PWPSALPSFH AFKDGDMNIN SQMMWLQGGI GDQGLQSLNF  420
QGFGVAPWMQ PRLDTSSIQG VQPDLYQAMA AAAFQEMRTV DSSKLGSQSL LQFQQPQSMS  480
NGSPAIIQRQ MLQQSQTQNA FLQGFQENQT TSQVQLLQQL QRSNSYNNHR QQQQQQQQQQ  540
RQQQQQQQQS QQMQQIPQFS DQQQISNLIP AFPKASGSQA QSSSLPTAAS ECQQPTFSDP  600
LGNSLAISNA SSMQSILGSL SHAGASHLHN LKGSNPIVSS SLLSKPVAIE PQLSSETANY  660
ILPQVEHLGM VQSNVLSNVL PPFPGREYSA YQSSTDTQNN FLFGVSIDSS SLVLQHGMTN  720
LKNIGNENDS LSLPYAASNF TSASGTDFPL NSDMTTSSCV DESGYLQSSE YVDQVNPPTG  780
TFVKVHKLGS FGRSLDISKF SSYNELRCEL ARMFGLEGQL EDPQRSGWQL VFVDRENDIL  840
LLGDDPWQEF VNNVWYIKIL SPLEVQQMGK EGLNPAASDP SQTRHQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1652036247388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gra.14480.0flower| flowering
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO488001620.0
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).
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_012437324.10.0PREDICTED: auxin response factor 6-like isoform X1
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLA0A0D2SY210.0A0A0D2SY21_GOSRA; Auxin response factor
STRINGGorai.008G097200.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM13442894
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.20.0auxin response factor 6
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]