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 Brast08G025200.2.p
Organism
Brachypodium stacei
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family ARF
Protein Properties Length: 726aa    MW: 78997.5 Da    PI: 7.84
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Brast08G025200.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.31.7e-24169270199
                         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   
  Brast08G025200.2.p 169 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyS-QQRPSQELAAKDLHGTEWKFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFL-- 256
                         99****************************963.3445679************************************************.. PP

                         SSSEE..EEEEE-S CS
                  B3  86 grsefelvvkvfrk 99 
                         + +++el+++v+r+
  Brast08G025200.2.p 257 RGDDGELRLGVRRA 270
                         3489999***9996 PP
2Auxin_resp110.51.7e-36295375182
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                         +aha++tk +F+++YnPr s+seF+v+++k+ k+l++++svG Rfkm++e+ed++err++G+++g+ d+dp  W++SkW++L
  Brast08G025200.2.p 295 VAHAVATKGMFQIYYNPRLSQSEFIVPYWKFTKSLSQPFSVGLRFKMRYESEDAAERRYTGIITGTGDADP-MWRGSKWKCL 375
                         79*********************************************************************.9********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019366.93E-43162280IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.1E-40162272IPR015300DNA-binding pseudobarrel domain
CDDcd100175.05E-22167269No hitNo description
SMARTSM010192.0E-22169271IPR003340B3 DNA binding domain
PROSITE profilePS5086313.38169271IPR003340B3 DNA binding domain
PfamPF023622.5E-22169270IPR003340B3 DNA binding domain
PfamPF065072.3E-31295375IPR010525Auxin response factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 726 aa     Download sequence    Send to blast
MAGIDLNTVE EDEEEAAAGP GGECSSSLHS QGSSAATASA TPPPPPGQQQ QARPPSAVCL  60
ELWHACAGPV APMPRKGSVV VYLPQGHLEQ LGDAAAPAPA APVPPHVFCR VVDVSLHADA  120
STDEVYAQLS LLPENEEAVR RTREGAEEGS GGEDGETVKQ RFSRMPHMFC KTLTASDTST  180
HGGFSVPRRA AEDCFPPLDY SQQRPSQELA AKDLHGTEWK FRHIYRGQPR RHLLTTGWSA  240
FVNKKKLVSG DAVLFLRGDD GELRLGVRRA AQLKTGSAFP GLYSQCSNLG TLANVAHAVA  300
TKGMFQIYYN PRLSQSEFIV PYWKFTKSLS QPFSVGLRFK MRYESEDAAE RRYTGIITGT  360
GDADPMWRGS KWKCLLVRWD DDVECRRPNR VSPWEIELTS SASGSHLATP ASKRLKPCLP  420
HVNPEYMVPH GGGRPDFAES AQFRKVLQGQ ELLGYRTHDG TAVATSRPCE ARNSQYIDER  480
SCSNDVGNSV LGVPRLGART PYGNPGFPYH CSGFGESQRF QKVLQGQEVF HPYRGSLVDA  540
RIRSSGVHQQ DGPYSSGAAN KWHAQLHGRA FRGPPAPVLP SQSASSPPSV LMFQQANSKV  600
SRFEFGHGHL DMNEDDRHAR FDSTEGVGRT VQTLSLRPHV AAGEVMDGHV AVENKSVGTN  660
SCKIFGISLA EKVRARDEMG CGDANYPSSI QSLKQQVPKS LGSSCATVHE QRPVVGRAID  720
VQQWI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1155740518361Auxin response factor 1
4ldw_A1e-1155740518361Auxin response factor 1
4ldw_B1e-1155740518361Auxin 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
PlantRegMapBrast08G025200.2.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_003567902.10.0auxin response factor 15
RefseqXP_014754927.10.0auxin response factor 15
SwissprotQ8S9850.0ARFO_ORYSJ; Auxin response factor 15
TrEMBLI1HGF40.0I1HGF4_BRADI; Auxin response factor
STRINGBRADI2G16610.10.0(Brachypodium distachyon)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-162ARF 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]