Locus TA06260

Locus

ID TA06260 genomic context (Gviz / IGV.js)
genomic context
Family ldr/rdl
Organism Escherichia coli str. K12 substr. DH10B
Taxonomy Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia; Escherichia coli str. K-12 substr. DH10B
Genomic location chromosome
Genomic coordinates 3795671-3796038
Genome accession (GenBank) NC_010473.1
Genome map CGView
Genomic context IGV.js
Upstream gene bcsG : cellulose biosynthesis protein BcsG
Within-locus gene ldrD : type I toxin-antitoxin system toxic polypeptide LdrD
Downstream gene yhjV : aromatic amino acid transport family protein

Toxin mRNA

Name Ldr predicted 2D structure (mfold / VARNA)
mRNA structure
Locus_tag NA
Genomic coordinates 3795671-3796038 (strand -)
Length 368 nt
Sequence
(with 50 nt upstream, and -10 box in red; mRNA/asRNA interaction region underlined; toxin ORF in blue; transcript sequence in UPPERCASE)
gaagattgccgggtgctgacagtaaaaagcaatcgtagaatcagcggcaa
GCCGGAAAGGTTCCGGTGAGGCGCAATGTTGCGGGGGCTTTATCCCTGGT
GGCATTGGTTGCTGGAGAGAGAAAACCCCCGCACGTTGCAGGTATGCACC
TGACAACACCACGGGGGCTAATCTTGACTCTAGACCACTCAAGAATAGCC
GCGAAACGTTGTCATTACAACACAGGCGGCTATATGACGTTCGCAGAGCT
GGGCATGGCCTTCTGGCATGATTTAGCGGCTCCGGTCATTGCTGGCATTC
TTGCCAGTATGATCGTGAACTGGCTGAACAAGCGGAAGTAACGTGTCATG
CGGGCGTCAGGCTGCCGTAATGGCAATTTGCGCCCGGACCAGGCCGCAGG
GGGGAAACTCTGCGGCCT
→ BLAST sequence
Predicted 2D structure PDF, PNG

Antitoxin asRNA

Name Rdl predicted 2D structure (mfold / VARNA)
sRNA structure
Locus_tag NA
Genomic coordinates 3795903-3795969 (strand +)
Length 67 nt
Sequence
(with 50 nt upstream, and -10 box in red; transcript sequence in UPPERCASE)
catatagccgcctgtgttgtaatgacaacgtttcgcggctattcttgagt
GGTCTAGAGTCAAGATTAGCCCCCGTGGTGTTGTCAGGTGCATACCTGCA
ACGTGCGGGGGTTTTCT
→ BLAST sequence
Predicted 2D structure PDF, PNG

Toxin Peptide

Name Ldr predicted 2D structure (PSIPRED / POLYVIEW-2D)
peptide structurepeptide structure legend

hydrophobicity plot (ProtScale)
peptide hydrophobicity
Locus_tag NA
ORF genomic coordinates 3795748-3795855 (strand -)
ORF length (peptide length) 108 nt (35 aa)
ORF sequence
ATGACGTTCGCAGAGCTGGGCATGGCCTTCTGGCATGATTTAGCGGCTCC
GGTCATTGCTGGCATTCTTGCCAGTATGATCGTGAACTGGCTGAACAAGC
GGAAGTAA
→ BLAST sequence
Peptide sequence
MTFAELGMAFWHDLAAPVIAGILASMIVNWLNKRK*
→ BLAST sequence
Predicted 2D structure PDF, GIF
Hydrophobicity plot PDF, GIF