PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Carubv10022755m
Common NameCARUB_v10022755mg
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family ARF
Protein Properties Length: 701aa    MW: 77363.6 Da    PI: 7.57
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10022755mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.33.4e-24115216199
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f k+lt+sd+++ g +++p+ +ae++        +++ +  t++ +d +g++W++++iyr++++r++lt+GW+ Fv++++L +gD++vF   ++
  Carubv10022755m 115 FAKTLTQSDANNGGGFSVPRYCAETIfprldytAEPPVQ--TVIAKDIHGETWKFRHIYRGTPRRHLLTTGWSTFVNQKKLIAGDSIVFL--RS 204
                      89****************************987555555..8************************************************..45 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      +++ l+v+++r+
  Carubv10022755m 205 ESGDLCVGIRRA 216
                      89999****997 PP

2Auxin_resp114.68.9e-38277360183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                      a+ +a+ +++FevvY+Prast+eF+vk+++v++a++++++ GmRfkmafetedss++++ +Gtv++v+ +dp+rWpnS+Wr+L+
  Carubv10022755m 277 AVARAACGQAFEVVYYPRASTPEFCVKAADVRSAMRIRWCSGMRFKMAFETEDSSRISWfMGTVSAVQVADPIRWPNSPWRLLQ 360
                      56778899**************************************************************************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.106.9E-37108218IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.88E-29108216IPR015300DNA-binding pseudobarrel domain
CDDcd100174.99E-21114215No hitNo description
PROSITE profilePS5086313.155115217IPR003340B3 DNA binding domain
SMARTSM010191.4E-21115217IPR003340B3 DNA binding domain
PfamPF023625.7E-22115216IPR003340B3 DNA binding domain
PfamPF065072.7E-32278360IPR010525Auxin response factor
PROSITE profilePS5174519.344587675IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007389Biological Processpattern specification process
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009738Biological Processabscisic acid-activated signaling pathway
GO:0009743Biological Processresponse to carbohydrate
GO:0010154Biological Processfruit development
GO:0031540Biological Processregulation of anthocyanin biosynthetic process
GO:0048366Biological Processleaf development
GO:0048441Biological Processpetal development
GO:0048442Biological Processsepal development
GO:0048589Biological Processdevelopmental growth
GO:0048829Biological Processroot cap development
GO:0051301Biological Processcell division
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 701 aa     Download sequence    Send to blast
MEQEKSLDPQ LWHACAGSMV QIPSVNSTVF YFAQGHTEHA HAPPDFHAPR VPPLILCRVV  60
SVKFLADAET DEVFSKITLL PLPGNDLDLD NDAVLGLTPP PSDVNVNGNE KPASFAKTLT  120
QSDANNGGGF SVPRYCAETI FPRLDYTAEP PVQTVIAKDI HGETWKFRHI YRGTPRRHLL  180
TTGWSTFVNQ KKLIAGDSIV FLRSESGDLC VGIRRAKRGG LGSNGLASDN NPYPGFSGFL  240
RDDETTTTTT SKLMMMKRNE GNTAAAGRVR VEAVAEAVAR AACGQAFEVV YYPRASTPEF  300
CVKAADVRSA MRIRWCSGMR FKMAFETEDS SRISWFMGTV SAVQVADPIR WPNSPWRLLQ  360
VAWDEPDLLQ NVKRVSPWLV ELVSNMPAIH LSPFSPRKKI RMPQPFEFPF DGTKFPIFSP  420
GFASNGAGES VCYLSNDNNN APAGIQGARQ AQAQQLFGSP SPSLLSDLNL SSYSGNNKLQ  480
SPAMFLSGFN PRHHYDSIVS RQGRDMENGN NISCSLTMGN PGMVQDKKKS GGSVKTHQFL  540
LFGQPILTEQ QVMNRKRSLE EEAEAREEKG SAARGLTWNY GFQGLETGHC KVFMESEDVG  600
RTLDLSVIGS YQELYRKLAE MFHIEERLDL LTHVVYQDAN NVTKRIGDEP FSDFMRATKR  660
LTIKMDIGGD SVRKTWITGI RNGENGIDAS AKTGPLSIFA *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A4e-80738151388Auxin 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10022755m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF3250730.0AF325073.1 Arabidopsis thaliana unknown protein (At2g28350) mRNA, complete cds.
GenBankAF3369190.0AF336919.1 Arabidopsis thaliana clone C00034 (b) auxin response factor 10 (At2g28350) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006293778.10.0auxin response factor 10
SwissprotQ9SKN50.0ARFJ_ARATH; Auxin response factor 10
TrEMBLR0FVP90.0R0FVP9_9BRAS; Auxin response factor
STRINGXP_006293778.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58027130
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G28350.10.0auxin response factor 10
Publications ? help Back to Top
  1. Yang ZB, et al.
    TAA1-regulated local auxin biosynthesis in the root-apex transition zone mediates the aluminum-induced inhibition of root growth in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2889-904
    [PMID:25052716]
  2. Bennett T,van den Toorn A,Willemsen V,Scheres B
    Precise control of plant stem cell activity through parallel regulatory inputs.
    Development, 2014. 141(21): p. 4055-64
    [PMID:25256342]
  3. Ye Y, et al.
    Germostatin resistance locus 1 encodes a PHD finger protein involved in auxin-mediated seed dormancy and germination.
    Plant J., 2016. 85(1): p. 3-15
    [PMID:26611158]
  4. Nguyen TC,Obermeier C,Friedt W,Abrams SR,Snowdon RJ
    Disruption of Germination and Seedling Development in Brassica napus by Mutations Causing Severe Seed Hormonal Imbalance.
    Front Plant Sci, 2016. 7: p. 322
    [PMID:27014334]
  5. Liu Z, et al.
    Repression of callus initiation by the miRNA-directed interaction of auxin-cytokinin in Arabidopsis thaliana.
    Plant J., 2016. 87(4): p. 391-402
    [PMID:27189514]
  6. 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]
  7. 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]
  8. 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]