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 Cucsa.152170.1
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: 900aa    MW: 99671.2 Da    PI: 6.4401
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.152170.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.82.1e-23127228199
                     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.152170.1 127 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfSMQPPA-QELIARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDAVLFI--WNEK 218
                     99*****************************9445444.38************************************************..8899 PP

                     E..EEEEE-S CS
              B3  90 felvvkvfrk 99 
                      +l+++++r+
  Cucsa.152170.1 219 NQLLLGIRRA 228
                     999****997 PP
2Auxin_resp117.61e-38253336183
      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.152170.1 253 AAHAAATISRFTIFFNPRASPSEFVIPLAKYVKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWQNSHWRSVK 336
                     79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.01E-48112256IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.8E-42120242IPR015300DNA-binding pseudobarrel domain
CDDcd100171.68E-21126227No hitNo description
PROSITE profilePS5086312.449127229IPR003340B3 DNA binding domain
SMARTSM010191.5E-23127229IPR003340B3 DNA binding domain
PfamPF023621.1E-21127228IPR003340B3 DNA binding domain
PfamPF065076.6E-33253336IPR010525Auxin response factor
SuperFamilySSF542772.49E-7756841No hitNo description
PfamPF023094.8E-7758855IPR033389AUX/IAA domain
PROSITE profilePS5174522.663766850IPR000270PB1 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: 900 aa     Download sequence    Send to blast
MRLSAGGFSP QAPEGERRVL NSELWHACAG PLVSLPAVGS RVVYFPQGHS EQVAASTNRE  60
VDAQIPNYPS LPPQLICQLH NLTMHADAET DEVYAQMTLQ PLSAQELKEA YLPAELGTPS  120
RQPTNYFCKT LTASDTSTHG GFSVPRRAAE KVFPPLDFSM QPPAQELIAR DLHDNEWKFR  180
HIFRGQPKRH LLTTGWSVFV SAKRLVAGDA VLFIWNEKNQ LLLGIRRASR PQTVMPSSVL  240
SSDSMHLGLL AAAAHAAATI SRFTIFFNPR ASPSEFVIPL AKYVKAVYHT RVSVGMRFRM  300
LFETEESSVR RYMGTITGIS DLDPVRWQNS HWRSVKVGWD ESTAGERQPR VSLWEIEPLT  360
TFPMYPSPFP LRLKRPWPTG LPSFGIKDSD LGMNSPFMWL RGDNSDRGIQ CLNFQGAGVS  420
PWMQPRLDPS MMGMQSDMYQ VMATAALQEM RAIDYSKISP ASVLQFQQPQ SLPCQSSTLM  480
QPQMLHQSQP QQAFLQSVQE NQQHSQPQSQ TQSHHLQPQL PQQSFNNHSQ QHQQQPRQTQ  540
PLDHQQIPSS IPAISQFASC SQSQSPSLQT VPSLCQQPSF SDSNGNPATS PTVSPLHSLA  600
GSFVQDDSSQ LLNLQRAHSV IPSAGWPSKR AAIDPLCTGA SQYFLPQVEM LGTQQSSISQ  660
NTVALPPFPG RECPIDDREE SSDPQNHVLF GVNIDSSSLL MQNGMSTLRG VCNDSVSTTL  720
PFSSNYMSTA GTNFPVNPTM TSSNCIDESG LLQSHENVGQ VNPPNGTFVK VHKSGTYSRS  780
LDITKFNSYP ELRSELARMF GLEGELEDPL RSGWQLVFVD RENDVLLLGD GPWPEFVNSV  840
WCIKILSPEE VQDMGKRGLE LLNSVPIQRL SNSTCDDYGS RQDSRNLISG IASVGPLDY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1591535745388Auxin 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)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF17653488
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]