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 GSVIVT01011008001
Common NameLOC100246055, VIT_07s0104g01230
Organism
Vitis vinifera
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis
Family ARF
Protein Properties Length: 697aa    MW: 77697.6 Da    PI: 5.5089
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSVIVT01011008001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B380.61.6e-25137238199
                        EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                        f k+ltpsd++++g +++pk++a+e+       ++++ +  +l+ +d++g +W++++i+r++++r++lt+GW++Fv +++L +gD ++F   
  GSVIVT01011008001 137 FSKTLTPSDTNTHGGFSVPKRHADEClppldmtQQPPVQ--ELIAKDLHGTEWRFRHIFRGQPKRHLLTSGWSQFVTSKKLVAGDACIFL-- 224
                        88****************************975555444..8************************************************.. PP

                        SSSEE..EEEEE-S CS
                 B3  86 grsefelvvkvfrk 99 
                        +  ++el+v+v+r+
  GSVIVT01011008001 225 RGANGELRVGVRRA 238
                        3489999*****97 PP
2Auxin_resp1003.2e-33263342181
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrs 81 
                        a ha+st+++F+v+++P++ ++eF+++++++ k+ ++++svG+Rf+m fe+e++s++r++Gt+vg++d+d +rWpnS+Wr 
  GSVIVT01011008001 263 AFHAISTGTMFTVYFRPWT-SPEFIIPYDQYIKSAENNYSVGTRFRMLFEGEECSQQRCAGTIVGIEDVDAIRWPNSEWRR 342
                        689***************7.79**********************************************************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.44E-37127266IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.8E-41133250IPR015300DNA-binding pseudobarrel domain
CDDcd100171.07E-24136237No hitNo description
PfamPF023627.2E-23137238IPR003340B3 DNA binding domain
SMARTSM010195.2E-24137239IPR003340B3 DNA binding domain
PROSITE profilePS5086313.394137239IPR003340B3 DNA binding domain
PfamPF065071.5E-30263343IPR010525Auxin response factor
PROSITE profilePS5174520.753602684IPR000270PB1 domain
SuperFamilySSF542777.85E-10606679No hitNo description
PfamPF023094.4E-7643682IPR033389AUX/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
MGSGGDGERM RVDLEGDGLQ SKNIQDENDD LYTELWLGCA GPLVNILRAG QKVVYFPQGH  60
IEQVEAYTNQ DGQMEMPIYN LPSKIFCKVV YVQLKAEACT DEVFAQVTLL PEAKQEWQSP  120
DHGNSQFFPR RTHSYSFSKT LTPSDTNTHG GFSVPKRHAD ECLPPLDMTQ QPPVQELIAK  180
DLHGTEWRFR HIFRGQPKRH LLTSGWSQFV TSKKLVAGDA CIFLRGANGE LRVGVRRATR  240
LQNNVSASVL SGHSMQHGIL ASAFHAISTG TMFTVYFRPW TSPEFIIPYD QYIKSAENNY  300
SVGTRFRMLF EGEECSQQRC AGTIVGIEDV DAIRWPNSEW RRFKVQWDTS DITPCPERVA  360
AWNIEPIEFI KKKHTSILPQ LKRARPTDPL CPAIPILVGD VEHTKIQSGV LQGQENDDIG  420
AHKPDTSKLP SLLVVPPPNS DWGPQHFPMH DPFYQCPGKT ILFQGENPLS SGIANGCSLT  480
FTYCGACDNV GGSRNLSFAN LDSSNCEFQD WRALEPKGNE ASFAQQNRID KFKLFGVNLI  540
NSPAELPSPQ VASSSELQSP CSIPPTSQSS ISESIQASEP SKSVSGDLSD KQCKNCCSVM  600
VRSCTKVLKY GTALGRSIDL ARFDGYDELI IELDQMFDFG GSLMDGSCRW HVTYTDDEGD  660
MMLLGDYPWQ EFRSMVQRIF ICPKEETERL NSATPS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1382836716355Auxin response factor 1
4ldw_A1e-1382836716355Auxin response factor 1
4ldw_B1e-1382836716355Auxin response factor 1
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
GenBankAM4804770.0AM480477.1 Vitis vinifera, whole genome shotgun sequence, contig VV78X193114.7, clone ENTAV 115.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019076425.10.0PREDICTED: auxin response factor 23 isoform X1
SwissprotQ5JK200.0ARFD_ORYSJ; Auxin response factor 4
TrEMBLD7TP490.0D7TP49_VITVI; Auxin response factor
STRINGVIT_07s0104g01230.t010.0(Vitis vinifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP1325645
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.31e-161auxin response factor 2
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. Song X, et al.
    Rice RNA-dependent RNA polymerase 6 acts in small RNA biogenesis and spikelet development.
    Plant J., 2012. 71(3): p. 378-89
    [PMID:22443269]
  3. Kishimoto N, et al.
    Identification of the duplicated segments in rice chromosomes 1 and 5 by linkage analysis of cDNA markers of known functions.
    Theor. Appl. Genet., 1994. 88(6-7): p. 722-6
    [PMID:24186168]