PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Cucsa.152170.3
Common NameCsa_1G536820, LOC101211705
Organism
Cucumis sativus
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: 817aa    MW: 90726.1 Da    PI: 6.3926
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.152170.3genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3741.8e-2344145199
                     EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                     f+k+lt sd++++g +++p++ ae+       +++++  ++l+ +d++ ++W++++i+r++++r++lt+GW+ Fv+a++L +gD v+F   ++++
  Cucsa.152170.3  44 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfSMQPPA-QELIARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDAVLFI--WNEK 135
                     99*****************************9445444.38************************************************..8899 PP

                     E..EEEEE-S CS
              B3  90 felvvkvfrk 99 
                      +l+++++r+
  Cucsa.152170.3 136 NQLLLGIRRA 145
                     999****997 PP
2Auxin_resp117.89e-39170253183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                     aahaa+t s F++++nPras+seFv++++k++ka++ ++vsvGmRf+m fete+ss rr++Gt++g+sdldpvrW+nS+Wrs+k
  Cucsa.152170.3 170 AAHAAATISRFTIFFNPRASPSEFVIPLAKYVKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWQNSHWRSVK 253
                     79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.62E-4829173IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.2E-4237159IPR015300DNA-binding pseudobarrel domain
CDDcd100171.40E-2143144No hitNo description
PfamPF023629.2E-2244145IPR003340B3 DNA binding domain
PROSITE profilePS5086312.44944146IPR003340B3 DNA binding domain
SMARTSM010191.5E-2344146IPR003340B3 DNA binding domain
PfamPF065075.8E-33170253IPR010525Auxin response factor
SuperFamilySSF542772.16E-7673758No hitNo description
PfamPF023094.2E-7675772IPR033389AUX/IAA domain
PROSITE profilePS5174522.663683767IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 817 aa     Download sequence    Send to blast
MHADAETDEV YAQMTLQPLS AQELKEAYLP AELGTPSRQP TNYFCKTLTA SDTSTHGGFS  60
VPRRAAEKVF PPLDFSMQPP AQELIARDLH DNEWKFRHIF RGQPKRHLLT TGWSVFVSAK  120
RLVAGDAVLF IWNEKNQLLL GIRRASRPQT VMPSSVLSSD SMHLGLLAAA AHAAATISRF  180
TIFFNPRASP SEFVIPLAKY VKAVYHTRVS VGMRFRMLFE TEESSVRRYM GTITGISDLD  240
PVRWQNSHWR SVKVGWDEST AGERQPRVSL WEIEPLTTFP MYPSPFPLRL KRPWPTGLPS  300
FGIKDSDLGM NSPFMWLRGD NSDRGIQCLN FQGAGVSPWM QPRLDPSMMG MQSDMYQVMA  360
TAALQEMRAI DYSKISPASV LQFQQPQSLP CQSSTLMQPQ MLHQSQPQQA FLQSVQENQQ  420
HSQPQSQTQS HHLQPQLPQQ SFNNHSQQHQ QQPRQTQPLD HQQIPSSIPA ISQFASCSQS  480
QSPSLQTVPS LCQQPSFSDS NGNPATSPTV SPLHSLAGSF VQDDSSQLLN LQRAHSVIPS  540
AGWPSKRAAI DPLCTGASQY FLPQVEMLGT QQSSISQNTV ALPPFPGREC PIDDREESSD  600
PQNHVLFGVN IDSSSLLMQN GMSTLRGVCN DSVSTTLPFS SNYMSTAGTN FPVNPTMTSS  660
NCIDESGLLQ SHENVGQVNP PNGTFVKVHK SGTYSRSLDI TKFNSYPELR SELARMFGLE  720
GELEDPLRSG WQLVFVDREN DVLLLGDGPW PEFVNSVWCI KILSPEEVQD MGKRGLELLN  780
SVPIQRLSNS TCDDYGSRQD SRNLISGIAS VGPLDY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1211274115388Auxin 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).
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
MP00033PBMTransfer from AT5G37020Download
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
GenBankAB1126740.0AB112674.1 Cucumis sativus CsARF4 mRNA for auxin response factor 4, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004150775.10.0PREDICTED: auxin response factor 6-like
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLA0A0A0LVD90.0A0A0A0LVD9_CUCSA; Auxin response factor
STRINGXP_004150775.10.0(Cucumis sativus)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.10.0auxin response factor 6
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. Saito Y, et al.
    Isolation of cucumber CsARF cDNAs and expression of the corresponding mRNAs during gravity-regulated morphogenesis of cucumber seedlings.
    J. Exp. Bot., 2004. 55(401): p. 1315-23
    [PMID:15133054]
  3. Ren Y, et al.
    An integrated genetic and cytogenetic map of the cucumber genome.
    PLoS ONE, 2009. 4(6): p. e5795
    [PMID:19495411]
  4. Guo S, et al.
    Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types.
    BMC Genomics, 2010. 11: p. 384
    [PMID:20565788]
  5. Li Z, et al.
    RNA-Seq improves annotation of protein-coding genes in the cucumber genome.
    BMC Genomics, 2011. 12: p. 540
    [PMID:22047402]