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.120390.4
Common NameCsa_6G110820, LOC101221914
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 GRAS
Protein Properties Length: 546aa    MW: 61063.1 Da    PI: 6.7255
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.120390.4genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS448.44.7e-1371765452374
            GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshl 96 
                     ++ L++cA+avs++d+ +aq+l+ +l++++s  g+pmqRl ay++e+L arla+s+s +yk+l+++e +    +e l++++l++ev+P++kf+++
  Cucsa.120390.4 176 KKILIACAKAVSHNDALMAQWLMDELRKMVSVCGEPMQRLGAYMLEGLVARLASSGSCIYKSLRCKEPA---RAELLSYMHLLYEVCPYFKFGYM 267
                     789*****************************************************************9...89********************* PP

            GRAS  97 taNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnvlvakrledl 189
                      aN aI ea++ e+rvHiiDf+isqG+QW++L+qa+a Rp+gpp++RiTg+++p+s   +   l  +g+rL+k+A+ ++vpfef+  ++ +  ++
  Cucsa.120390.4 268 SANGAIAEAMKDEDRVHIIDFQISQGTQWVTLIQAFAGRPGGPPHIRITGIDDPASAyaRGGGLDIVGKRLSKLAKLFNVPFEFHS-ASISGCNV 361
                     *******************************************************9999999************************.7889999* PP

            GRAS 190 eleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerik 284
                     + ++L +++gEalaVn++++lh+++desvs+e++rd++L+lvk+lsPkvv++veqe+++n++ F+ rf+e+l+yy a+f+s++++lpr+++eri+
  Cucsa.120390.4 362 HQNNLGIRRGEALAVNFAFMLHHMPDESVSTENHRDRLLRLVKGLSPKVVTLVEQESNTNTAAFFPRFVETLDYYNAMFESIDVTLPRQHKERIN 456
                     *********************************************************************************************** PP

            GRAS 285 vErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                     +E+++l+re+vn++acegaer+erhe l+kWr r++ aGF+p+pls+ +++++k+ll +++++ yr+ee++g+l+lgW+dr Lv+ +aW+
  Cucsa.120390.4 457 IEQHCLAREVVNILACEGAERVERHELLGKWRLRFGLAGFTPYPLSSLVNATIKTLLDNYSNR-YRLEEREGALYLGWMDRDLVASCAWK 545
                     *************************************************************77.*************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098568.326149526IPR005202Transcription factor GRAS
PfamPF035141.6E-134176545IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009640Biological Processphotomorphogenesis
GO:0005737Cellular Componentcytoplasm
GO:0004871Molecular Functionsignal transducer activity
Sequence ? help Back to Top
Protein Sequence    Length: 546 aa     Download sequence    Send to blast
MQASQLHRGS HMAKRICYQP LQEVDAYYFS QFQSLGRQLY SNVGNQRGHF NVQDIGDRYC  60
TLESSSGSHG YATHNSTSTV TFSPNGSPVS QQDYRSNPSD QHSSPDNTYG SSVSGSSITD  120
DISDFRHKLL ELETVMLGPD SDVIYSFDSI YQEGTDNPEM GTWGQVMDAI TKGNLKKILI  180
ACAKAVSHND ALMAQWLMDE LRKMVSVCGE PMQRLGAYML EGLVARLASS GSCIYKSLRC  240
KEPARAELLS YMHLLYEVCP YFKFGYMSAN GAIAEAMKDE DRVHIIDFQI SQGTQWVTLI  300
QAFAGRPGGP PHIRITGIDD PASAYARGGG LDIVGKRLSK LAKLFNVPFE FHSASISGCN  360
VHQNNLGIRR GEALAVNFAF MLHHMPDESV STENHRDRLL RLVKGLSPKV VTLVEQESNT  420
NTAAFFPRFV ETLDYYNAMF ESIDVTLPRQ HKERINIEQH CLAREVVNIL ACEGAERVER  480
HELLGKWRLR FGLAGFTPYP LSSLVNATIK TLLDNYSNRY RLEEREGALY LGWMDRDLVA  540
SCAWK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A2e-611795458375GRAS family transcription factor containing protein, expressed
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in phytochrome A (phyA) signal transduction. {ECO:0000269|PubMed:10817761}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankLN6819170.0LN681917.1 Cucumis melo genomic scaffold, anchoredscaffold00085.
GenBankLN7132650.0LN713265.1 Cucumis melo genomic chromosome, chr_11.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004140012.10.0PREDICTED: scarecrow-like transcription factor PAT1
RefseqXP_011656879.10.0PREDICTED: scarecrow-like transcription factor PAT1
RefseqXP_011656880.10.0PREDICTED: scarecrow-like transcription factor PAT1
SwissprotQ9LDL70.0PAT1_ARATH; Scarecrow-like transcription factor PAT1
TrEMBLA0A0A0KA550.0A0A0A0KA55_CUCSA; Uncharacterized protein
STRINGXP_004140012.10.0(Cucumis sativus)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G48150.20.0GRAS family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  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. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  6. Heyman J, et al.
    The heterodimeric transcription factor complex ERF115-PAT1 grants regeneration competence.
    Nat Plants, 2016. 2(11): p. 16165
    [PMID:27797356]