Locus TA06177

Locus

ID TA06177 genomic context (Gviz / IGV.js)
genomic context
Family ldr/rdl
Organism Escherichia coli str. K-12 substr. W3110 K-12
Taxonomy Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacteriales; Enterobacteriaceae; Escherichia; Escherichia coli str. K-12 substr. W3110
Genomic location chromosome
Genomic coordinates 3940145-3940512
Genome accession (GenBank) AC_000091.1
Genome map CGView
Genomic context IGV.js
Upstream gene yhjV : predicted transporter
Within-locus gene ldrD : toxic polypeptide, small
rdlD : regulatory antisense sRNA
Downstream gene bcsG : predicted inner membrane protein

Toxin mRNA

Name ldrD predicted 2D structure (mfold / VARNA)
mRNA structure
Locus_tag NA
Genomic coordinates 3940145-3940512 (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 rdlD predicted 2D structure (mfold / VARNA)
sRNA structure
Locus_tag NA
Genomic coordinates 3940213-3940279 (strand -)
Length 67 nt
Sequence
(with 50 nt upstream, and -10 box in red; transcript sequence in UPPERCASE)
atatagccgcctgtgttgtaatgacaacgtttcgcggctattcttgagtg
GTCTAGAGTCAAGATTAGCCCCCGTGGTGTTGTCAGGTGCATACCTGCAA
CGTGCGGGGGTTTTCTC
→ BLAST sequence
Predicted 2D structure PDF, PNG

Toxin Peptide

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

hydrophobicity plot (ProtScale)
peptide hydrophobicity
Locus_tag NA
ORF genomic coordinates 3940328-3940435 (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