PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Csa16g016820.1
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; Camelina
Family ARF
Protein Properties Length: 697aa    MW: 76653.8 Da    PI: 8.1139
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa16g016820.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.33.4e-24117218199
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f k+lt+sd+++ g +++p+ +ae++        +++ +  t++ +d +g++W++++iyr++++r++lt+GW+ Fv++++L +gD++vF   +++
  Csa16g016820.1 117 FAKTLTQSDANNGGGFSVPRYCAETIfprldytAEPPVQ--TVIAKDIHGETWKFRHIYRGTPRRHLLTTGWSTFVNQKKLIAGDSIVFL--RSE 207
                     89****************************987555555..8************************************************..458 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                     ++ l+v+++r+
  Csa16g016820.1 208 SGDLCVGIRRA 218
                     9999****997 PP

2Auxin_resp114.21.2e-37288370283
      Auxin_resp   2 ahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                     + +++ +++FevvY+Prast+eF+vk+++v++a++++++ GmRfkmafetedss++++ +Gtv++v+ +dp+rWpnS+Wr+L+
  Csa16g016820.1 288 VARVACGQAFEVVYYPRASTPEFCVKAADVRSAMRIRWCSGMRFKMAFETEDSSRISWfMGTVSAVQVADPIRWPNSPWRLLQ 370
                     6778899**************************************************************************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.107.2E-37110220IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.23E-29114218IPR015300DNA-binding pseudobarrel domain
CDDcd100175.37E-21116217No hitNo description
PfamPF023625.7E-22117218IPR003340B3 DNA binding domain
PROSITE profilePS5086313.155117219IPR003340B3 DNA binding domain
SMARTSM010191.4E-21117219IPR003340B3 DNA binding domain
PfamPF065072.6E-32288370IPR010525Auxin response factor
PROSITE profilePS5174518.298583671IPR000270PB1 domain
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: 697 aa     Download sequence    Send to blast
MEQEKSLDPQ LWHACAGSMV QIPTVNSTVF YFAQGHTEHA HVPPDFHAPR VPPLILCRVV  60
SVKFLADSET DEVFAKITLL PLPGNNDLDL DNNDAVLGLT PSSSDGNGNV NEKPASFAKT  120
LTQSDANNGG GFSVPRYCAE TIFPRLDYTA EPPVQTVIAK DIHGETWKFR HIYRGTPRRH  180
LLTTGWSTFV NQKKLIAGDS IVFLRSESGD LCVGIRRAKR GGLGSNGLGS DSPYPGFSGF  240
LRDDETTTTT TKLMMMKRNG GNDGNAASAA AATATAGRVR VEAVAEAVAR VACGQAFEVV  300
YYPRASTPEF CVKAADVRSA MRIRWCSGMR FKMAFETEDS SRISWFMGTV SAVQVADPIR  360
WPNSPWRLLQ VAWDEPDLLQ NVKRVSPWLV ELVSNMPAIH LSPFSPRKKI RIPQPFEFPF  420
DGTKFPIFSP GGESMCYLLN DNNNNNAPAG IQGARQAQQL FGSPSPSLLS DLNLSSYSGN  480
KLQSTAMFLS GFNPRHHYDN LVSRQGRGDT ENSNNISCSL TMGNPAMVHQ DKKKTGGGSV  540
KTHQFLLFGQ PILTEQQVMN RKRSLEEEAQ AREEKSSVAR GLTGHCKVFM ESEDVGRTLD  600
LSVIGSYQEL YRKLAEMFPI EERSDLLTHV VYRDANGVIK RIGEEPFSDF MKATKRLTIK  660
MDIGGDNVRK TWITGIRNGE NGIDASTKTG PLSIFA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A2e-76739151388Auxin 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
PlantRegMapCsa16g016820.1
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_010470097.10.0PREDICTED: auxin response factor 10-like
SwissprotQ9SKN50.0ARFJ_ARATH; Auxin response factor 10
TrEMBLA0A384K8810.0A0A384K881_ARATH; Auxin response factor
TrEMBLC0SV660.0C0SV66_ARATH; Auxin response factor (Fragment)
STRINGXP_010470097.10.0(Camelina sativa)
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]