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 snap_masked-scaffold03308-abinit-gene-0.21-mRNA-1
Organism
Castanea mollissima
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Fagaceae; Castanea
Family ARF
Protein Properties Length: 600aa    MW: 65692.7 Da    PI: 6.4537
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
snap_masked-scaffold03308-abinit-gene-0.21-mRNA-1genomeTHGPView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B379.82.9e-25125226199
                                                        EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..E CS
                                                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyr 53 
                                                        f k+ltpsd+++ g +++p+ +a+++        +++ +  tl+++d +g +We+++iyr
  snap_masked-scaffold03308-abinit-gene-0.21-mRNA-1 125 FAKILTPSDANNGGGFSVPRFCADSIfpplnyqAEPPVQ--TLSVTDVHGVVWEFRHIYR 182
                                                        89*********************999****985444444..9****************** PP

                                                        EETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
                                                 B3  54 kksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                                                        ++++r++lt+GW++Fv+ ++L +gD+vvF+  ++++++++v+v+r+
  snap_masked-scaffold03308-abinit-gene-0.21-mRNA-1 183 GTPRRHLLTTGWSKFVNHKKLVAGDSVVFM--RNTRGQMFVGVRRA 226
                                                        ******************************..5689999****996 PP
2Auxin_resp92.76e-31279362183
                                         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl. 59 
                                                        aa+ a+++ +FevvY+Pra++s+Fvvk+e ve+al+v ++ Gm+++ma+etedss+ ++ 
  snap_masked-scaffold03308-abinit-gene-0.21-mRNA-1 279 AAELAAQGLPFEVVYYPRAGWSDFVVKAEVVEEALNVFWTSGMKVRMAMETEDSSRMTWf 338
                                                        68899******************************************************* PP

                                         Auxin_resp  60 sGtvvgvsdldpvrWpnSkWrsLk 83 
                                                        +Gtv++    d   W++S+Wr+L+
  snap_masked-scaffold03308-abinit-gene-0.21-mRNA-1 339 QGTVSAAGVPDGGPWQGSPWRMLQ 362
                                                        **********************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.23E-30116232IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.107.0E-36118229IPR015300DNA-binding pseudobarrel domain
CDDcd100172.71E-21124225No hitNo description
PfamPF023628.2E-23125226IPR003340B3 DNA binding domain
PROSITE profilePS5086312.52125227IPR003340B3 DNA binding domain
SMARTSM010198.4E-21125227IPR003340B3 DNA binding domain
PfamPF065072.9E-28279362IPR010525Auxin 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:0010208Biological Processpollen wall assembly
GO:0048830Biological Processadventitious root development
GO:0052543Biological Processcallose deposition in cell wall
GO:0005634Cellular Componentnucleus
GO:0000987Molecular Functioncore promoter proximal region sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 600 aa     Download sequence    Send to blast
MPPQLHPPSP PGNLRRLDSK IWRACAGTSV QIPIVYSRVY YFPQGHVEQS SPPPTFLSPN  60
VLSRPLIHCR ISAVDFLADP VTDEVFARLV LHPIHAQQNL VGSPSEPSRS QNDVAVADED  120
KILSFAKILT PSDANNGGGF SVPRFCADSI FPPLNYQAEP PVQTLSVTDV HGVVWEFRHI  180
YRGTPRRHLL TTGWSKFVNH KKLVAGDSVV FMRNTRGQMF VGVRRAVRFN NDCAATARWS  240
SQIGGGTTRL KPEDDNACAR DGFSRSGMGK LSAEAVVEAA ELAAQGLPFE VVYYPRAGWS  300
DFVVKAEVVE EALNVFWTSG MKVRMAMETE DSSRMTWFQG TVSAAGVPDG GPWQGSPWRM  360
LQVTWDEPEV LHNAKRVSPW QVEVLSPTAP VHTALPPTKK FRTPQSSVQL TDGEGDLFFP  420
FSGYTNSTMG HMSQTLLNYN TFPASMQGAR QNLFSKSSLS NFISENNMCI DNSFGNNTVP  480
KLKSVSTELN IGSSQSENLS PDSQSSMHSS FGTEFVGTQC CSSPKVGTGS FQLFGKIIHT  540
NQPVESGFDD IGCAEDDGSK GYNETDDANN PLDHSLSYTK LLDRLDVQCQ RASAVGACNL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-681738351388Auxin response factor 5
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}.
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_023913496.10.0auxin response factor 17
SwissprotQ84WU60.0ARFQ_ARATH; Auxin response factor 17
TrEMBLA0A2N9FXJ20.0A0A2N9FXJ2_FAGSY; Auxin response factor
STRINGEMJ268880.0(Prunus persica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF40303056
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G77850.10.0auxin response factor 17
Publications ? help Back to Top
  1. Shi ZH, et al.
    Overexpression of AtTTP affects ARF17 expression and leads to male sterility in Arabidopsis.
    PLoS ONE, 2015. 10(3): p. e0117317
    [PMID:25822980]
  2. de Lucas M, et al.
    Transcriptional Regulation of Arabidopsis Polycomb Repressive Complex 2 Coordinates Cell-Type Proliferation and Differentiation.
    Plant Cell, 2016. 28(10): p. 2616-2631
    [PMID:27650334]
  3. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]
  4. Wang B, et al.
    Fine regulation of ARF17 for anther development and pollen formation.
    BMC Plant Biol., 2017. 17(1): p. 243
    [PMID:29258431]
  5. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  6. Lin JS, et al.
    MicroRNA160 Modulates Plant Development and Heat Shock Protein Gene Expression to Mediate Heat Tolerance in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 68
    [PMID:29449855]