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 XP_009113394.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family ARF
Protein Properties Length: 549aa    MW: 62381.3 Da    PI: 6.4652
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009113394.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B368.11.2e-21114214198
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f kvl+ sd++++g +vl k++a e+       ++    s++++ +d +g +W++k++ r++++r+++t+GW+eF+k ++L +gD++vF +   +
  XP_009113394.1 114 FTKVLSASDTSTNGGFVLYKRHAIEClplldmsQLT--PSQEIIAKDIHGHEWSFKHTSRGTPKRHLFTSGWNEFAKGKKLVAGDSFVFLR--GE 204
                     89****************************965444..5669************************************************3..37 PP

                     EE..EEEEE- CS
              B3  89 efelvvkvfr 98 
                     ++e +v++ +
  XP_009113394.1 205 NGESRVGISK 214
                     7777898865 PP
2Auxin_resp87.82e-29240319183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                     a +a+++k++F v+Y+Pr+  s+F+v+++k+++ +++k+s+G++f m+fe++d +e+r+ Gtvvgv+d+++ +W++S+WrsL+
  XP_009113394.1 240 ALNAIENKCMFVVFYKPRS--SQFIVNFDKFVDRVNNKFSIGSKFSMKFEGKDLNEIRYNGTVVGVRDFST-HWKDSEWRSLE 319
                     6799**************6..9**********************************************777.*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.1E-35105228IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.75E-28111221IPR015300DNA-binding pseudobarrel domain
CDDcd100171.31E-19113214No hitNo description
SMARTSM010197.7E-20114216IPR003340B3 DNA binding domain
PROSITE profilePS5086312.337114216IPR003340B3 DNA binding domain
PfamPF023626.5E-19114213IPR003340B3 DNA binding domain
PfamPF065071.3E-26240318IPR010525Auxin response factor
PROSITE profilePS5174517.288438518IPR000270PB1 domain
SuperFamilySSF542775.0E-7439513No hitNo description
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
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 549 aa     Download sequence    Send to blast
MAGDQIMHAQ PEVLAIGETN NYLNDKLWKL CAGPLFDTPK IGEKLVASMD DELCQLKPIF  60
DIPSKICCNV FSINLKVEPS TNEIYAEVSL LPDTSDVEIP IPKNENNIQN INYFTKVLSA  120
SDTSTNGGFV LYKRHAIECL PLLDMSQLTP SQEIIAKDIH GHEWSFKHTS RGTPKRHLFT  180
SGWNEFAKGK KLVAGDSFVF LRGENGESRV GISKAAHQQR NIPTSLISKE SMHHSVVATA  240
LNAIENKCMF VVFYKPRSSQ FIVNFDKFVD RVNNKFSIGS KFSMKFEGKD LNEIRYNGTV  300
VGVRDFSTHW KDSEWRSLEV QWDEAATIPR PDKVSPWEIE LLTHSSNIFK SDALKHKRQL  360
EVHEFGSKMW APTIYNEQMV QAMKEPSTTT ATTSCRLFGV DLMVPAITKD PVEPIVSNKK  420
CKISKIFEDE KVDHVQAKSR TKVHMEGVIE RTVDLTIFDG YNQLIDELER LFDIKGELHM  480
HNKWKMFFIY NDGDMMILGD DPWPKFCNMA KEIFICSKED VKIGIANNRF SEGDPTLTTT  540
ILPPDVNNT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-1121734713360Auxin response factor 1
4ldy_B1e-1121734713360Auxin 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). 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009113394.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794860.0JN979486.1 Brassica rapa subsp. pekinensis auxin response factor 25 (ARF25) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009113394.10.0PREDICTED: putative auxin response factor 14
SwissprotQ9LQE30.0ARFO_ARATH; Putative auxin response factor 15
TrEMBLH9B4E70.0H9B4E7_BRARP; Auxin response factor
STRINGBra027944.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7653631
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G35540.10.0auxin response factor 14