PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Cucsa.126650.2
Common NameCsa_1G073830, LOC101209220
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 LSD
Protein Properties Length: 132aa    MW: 14273.4 Da    PI: 6.4783
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.126650.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD129.71.1e-094266125
         zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                    Cg Cr lL Y  GA++V+C++C tV
  Cucsa.126650.2 42 CGTCRRLLKYLKGARYVQCSCCSTV 66
                    ***********************99 PP

2zf-LSD1421.6e-1380104125
         zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                     Cg+C +lL+YP+GA+sVRC++C  V
  Cucsa.126650.2  80 CGSCAVLLMYPYGASSVRCSSCTSV 104
                     **********************987 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010531.6E-133969IPR005735Zinc finger, LSD1-type
PfamPF069431.0E-74266IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010533.3E-1277106IPR005735Zinc finger, LSD1-type
PfamPF069436.2E-1180104IPR005735Zinc finger, LSD1-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009617Biological Processresponse to bacterium
Sequence ? help Back to Top
Protein Sequence    Length: 132 aa     Download sequence    Send to blast
MDVHEIEKDE DDGPPPGWEP ITPSLPLPPP PQLSSDMAQM VCGTCRRLLK YLKGARYVQC  60
SCCSTVNFVL EAHEVGQVKC GSCAVLLMYP YGASSVRCSS CTSVTEIGVH NRRPPWSVHQ  120
GQAAPPTNFV Q*
Functional Description ? help Back to Top
Source Description
UniProtPutative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankLN6819325e-52LN681932.1 Cucumis melo genomic scaffold, anchoredscaffold00001.
GenBankLN7132665e-52LN713266.1 Cucumis melo genomic chromosome, chr_12.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004146601.17e-94PREDICTED: protein LOL2 isoform X2
SwissprotO654262e-41LOL2_ARATH; Protein LOL2
TrEMBLA0A0A0LXE32e-92A0A0A0LXE3_CUCSA; Uncharacterized protein
STRINGXP_004163439.13e-93(Cucumis sativus)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G21610.11e-32lsd one like 2
Publications ? help Back to Top
  1. Ren Y, et al.
    An integrated genetic and cytogenetic map of the cucumber genome.
    PLoS ONE, 2009. 4(6): p. e5795
    [PMID:19495411]
  2. Guo S, et al.
    Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types.
    BMC Genomics, 2010. 11: p. 384
    [PMID:20565788]
  3. Li Z, et al.
    RNA-Seq improves annotation of protein-coding genes in the cucumber genome.
    BMC Genomics, 2011. 12: p. 540
    [PMID:22047402]