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 Cucsa.124410.1
Common NameCsa_6G445210, LOC101217039
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis
Family ARF
Protein Properties Length: 699aa    MW: 76609.4 Da    PI: 6.7817
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.124410.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.31.4e-23120221199
                     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   + +
  Cucsa.124410.1 120 FAKTLTQSDANNGGGFSVPRYCAETIfprldysADPPVQ--TILAKDVHGETWKFRHIYRGTPRRHLLTTGWSTFVNHKKLVAGDSIVFL--RAE 210
                     89****************************996555555..89***********************************************..448 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                     ++ l+v+++r+
  Cucsa.124410.1 211 NGDLCVGIRRA 221
                     8999****997 PP

2Auxin_resp111.96.2e-37287370183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                     aa+ as++++Fe++++Prast+eF+vk++ v++al+++++ GmRfkmafetedss++++ +Gt+ +v+ +dp+rWp+S+Wr+L+
  Cucsa.124410.1 287 AAKLASNGQPFEIIFYPRASTPEFCVKAALVKAALQIRWCSGMRFKMAFETEDSSRISWfMGTINSVQVSDPLRWPESPWRLLQ 370
                     7899******************************************************************************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.3E-37113224IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.92E-29114226IPR015300DNA-binding pseudobarrel domain
CDDcd100174.00E-21119220No hitNo description
PROSITE profilePS5086313.112120222IPR003340B3 DNA binding domain
SMARTSM010191.7E-21120222IPR003340B3 DNA binding domain
PfamPF023628.8E-22120221IPR003340B3 DNA binding domain
PfamPF065072.4E-31287370IPR010525Auxin response factor
PROSITE profilePS5174519.798612692IPR000270PB1 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: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: 699 aa     Download sequence    Send to blast
MITFMDSKEK LKEVEKCLDP QLWHACAGGM VQMPPVNARV FYFPQGHAEH SCAPVDFRNC  60
PKVPSYTLCR VSAIKFLADP DTDEVFAKLR LIPINGSELD FEDDGIGRLN GSEQDKPTSF  120
AKTLTQSDAN NGGGFSVPRY CAETIFPRLD YSADPPVQTI LAKDVHGETW KFRHIYRGTP  180
RRHLLTTGWS TFVNHKKLVA GDSIVFLRAE NGDLCVGIRR AKRGIGDGPE SSCGWNPAGG  240
NCAVSYGAFS AFLREDDNRL TRSANGMNGN GSLMGKGKVK PESVTEAAKL ASNGQPFEII  300
FYPRASTPEF CVKAALVKAA LQIRWCSGMR FKMAFETEDS SRISWFMGTI NSVQVSDPLR  360
WPESPWRLLQ VTWDEPDLLQ NVKRVSPWLV ELVSSMSPIH LAPFSPPRKK FRYPQHPDFP  420
LDNQPPVPSF SSYLHGTGSP FGCPPDNNPA GMQGARHAHF GLSLSDFHVS KLQSGLFSIG  480
YRSLDPAAGS TRLSGNVMTE KPSMSENVSC LLTMAHSTQA SKKFDGVKTP QLILFGRPIL  540
TELQMSQSFS GDTVSPVGTG NSSSDGNGDK MTNLSDGSGS ALHQQGLPEG SAGENFQWYK  600
DNCQEIDPNL DIGHCKVFME SEDVGRTLDL SSLGSYEELY RKLGNMFGID NSETLNHVLY  660
RDVSGAVKHV GDEQFSDFIK TARRLTILTD SGSNNVGA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-831839751394Auxin 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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00461DAPTransfer from AT4G30080Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC8433430.0KC843343.1 Cucumis sativus auxin response factor 10b (ARF10b) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004143252.10.0PREDICTED: auxin response factor 18
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A0A0KID30.0A0A0A0KID3_CUCSA; Auxin response factor
STRINGXP_004143252.10.0(Cucumis sativus)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF63734138
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.10.0auxin response factor 16
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. Ren Y, et al.
    An integrated genetic and cytogenetic map of the cucumber genome.
    PLoS ONE, 2009. 4(6): p. e5795
    [PMID:19495411]
  3. Guo S, et al.
    Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types.
    BMC Genomics, 2010. 11: p. 384
    [PMID:20565788]
  4. Li Z, et al.
    RNA-Seq improves annotation of protein-coding genes in the cucumber genome.
    BMC Genomics, 2011. 12: p. 540
    [PMID:22047402]
  5. Huang J,Li Z,Zhao D
    Deregulation of the OsmiR160 Target Gene OsARF18 Causes Growth and Developmental Defects with an Alteration of Auxin Signaling in Rice.
    Sci Rep, 2016. 6: p. 29938
    [PMID:27444058]