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 Seita.3G147000.1.p
Common NameLOC101776042, SETIT_021595mg
Organism
Setaria italica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria
Family ARF
Protein Properties Length: 608aa    MW: 67439.7 Da    PI: 9.0851
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Seita.3G147000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B378.38.2e-2535136199
                         EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                         f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv+ ++L +gD v+F   
  Seita.3G147000.1.p  35 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyS-QQRPSQELVAKDLHGTEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFL-- 122
                         99****************************963.3445679************************************************.. PP

                         SSSEE..EEEEE-S CS
                  B3  86 grsefelvvkvfrk 99 
                         + +++el+++v+r+
  Seita.3G147000.1.p 123 RGDDGELRLGVRRA 136
                         3489999***9996 PP
2Auxin_resp111.58.1e-37161241182
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                         +aha++tksvF+++YnPr s+seF+++++k++k++++++s+G Rfkm++e++d+ err++G+++g+s++dp  W++SkW++L
  Seita.3G147000.1.p 161 VAHAVATKSVFHIYYNPRLSQSEFIIPYSKFMKSFSQPFSAGLRFKMRYESDDATERRYTGIIAGISEADP-MWRGSKWKCL 241
                         79*********************************************************************.9********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.19E-4327151IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.105.0E-4128138IPR015300DNA-binding pseudobarrel domain
CDDcd100178.33E-2333135No hitNo description
PROSITE profilePS5086313.49335137IPR003340B3 DNA binding domain
SMARTSM010195.3E-2335137IPR003340B3 DNA binding domain
PfamPF023621.0E-2235136IPR003340B3 DNA binding domain
PfamPF065078.0E-31161241IPR010525Auxin 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: 608 aa     Download sequence    Send to blast
EVARRLRGGS EDGSGGDGED GDTVKQRFSR MPHMFCKTLT ASDTSTHGGF SVPRRAAEDC  60
FPPLDYSQQR PSQELVAKDL HGTEWRFRHI YRGQPRRHLL TTGWSAFVNK KKLVSGDAVL  120
FLRGDDGELR LGVRRAAQLK NGSAFPALYN QCSNLGSLAN VAHAVATKSV FHIYYNPRLS  180
QSEFIIPYSK FMKSFSQPFS AGLRFKMRYE SDDATERRYT GIIAGISEAD PMWRGSKWKC  240
LMVRWDDDVD FRRPNRISPW EIELTSSVSG SHLSAPNAKR LKPCLPHVNP DYLVPNGSGR  300
PDFAESAQFH KVLQGQELLG YRTHDNAAVA TSQPCEARNM QYIDERSCSN DASNSIPGVP  360
RLGVRTPLGS PGFSYHCSGF GESQRFQKVL QGQEVFRPYR GSLVDACLRN NAFHPQDGSH  420
APSAVNKWHT QLHGCAFRGP QAPMLPSQSS SPPSVLMFQR GNSKISRFEF GHGSLDKNED  480
DRPAMFGHDG GIGGTEQSLM LQPHHDSGEV RNRHVTVEKF HSTVAARKDG PDNREVNTNS  540
CKIFGISLTE KVPANKEKDS GDVNYPSPFL SLKQQVPKSL GNSCATVHEQ RPVVGRVIDV  600
STMDMMI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A4e-9033271122361Auxin response factor 1
4ldw_A4e-9033271122361Auxin response factor 1
4ldw_B4e-9033271122361Auxin response factor 1
4ldx_A6e-9033271122361Auxin response factor 1
4ldx_B6e-9033271122361Auxin response factor 1
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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapSeita.3G147000.1.p
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_004961223.10.0auxin response factor 15
SwissprotQ8S9850.0ARFO_ORYSJ; Auxin response factor 15
TrEMBLA0A368QH030.0A0A368QH03_SETIT; Auxin response factor (Fragment)
STRINGSi021595m0.0(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP25373580
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-128ARF family protein
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. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]