Locus TA06178

Locus

ID TA06178 genomic context (Gviz / IGV.js)
genomic context
Family ldr/rdl
Organism Escherichia coli str. K-12 substr. MG1655
Taxonomy Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia; Escherichia coli str. K-12 substr. MG1655
Genomic location chromosome
Genomic coordinates 1269093-1269451
Genome accession (GenBank) NC_000913.3
Genome map CGView
Genomic context IGV.js
Upstream gene kdsA : 3-deoxy-D-manno-octulosonate 8-phosphate synthase
Within-locus gene ldrA : small toxic polypeptide LdrA
rdlA : putative antisense regulatory RNA RdlA
Downstream gene ldrB : small toxic polypeptide LdrB

Toxin mRNA

Name ldrA predicted 2D structure (mfold / VARNA)
mRNA structure
Locus_tag NA
Genomic coordinates 1269093-1269451 (strand -)
Length 359 nt
Sequence
(with 50 nt upstream, and -10 box in red; mRNA/asRNA interaction region underlined; toxin ORF in blue; transcript sequence in UPPERCASE)
tcagggatgaagtgaagatgaattgagtcgtagtatccacaccaagccgg
CGTTATCCGGTGAGGCGCAATGTTGCGGGGGCTTTATCCCTGGTGGCATT
GGTTGCTGGAAAGAGAAAACCCCCGCACGTTGAGAGGTACAACCTGACAA
CAGAACGGGGGCTAATCTTGAACCAGAACAATTCAAGAATAGCCGCAAAA
TGTTGTCATTACAACAAGGCGGCTATATGACGCTCGCGCAGTTTGCCATG
ATTTTCTGGCACGACCTGGCAGCACCGATCCTGGCGGGAATTATTACCGC
AGCGATTGTCAGCTGGTGGCGTAACCGGAAGTAAGGTGAAAACGGGCGTC
AGGCTGCCGTGATGGCAATATGCGCCCGAAACCGGCCGCAGGGGTAACAG
CCTGCGGCC
→ BLAST sequence
Predicted 2D structure PDF, PNG

Antitoxin asRNA

Name rdlA predicted 2D structure (mfold / VARNA)
sRNA structure
Locus_tag NA
Genomic coordinates 1269332-1269387 (strand +)
Length 56 nt
Sequence
(with 50 nt upstream; transcript sequence in UPPERCASE)
gccttgttgtaatgacaacattttgcggctattcttgaattgttctggtt
CAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCGGGG
GTTTTC
→ BLAST sequence
Predicted 2D structure PDF, PNG

Toxin Peptide

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

hydrophobicity plot (ProtScale)
peptide hydrophobicity
Locus_tag NA
ORF genomic coordinates 1269168-1269275 (strand -)
ORF length (peptide length) 108 nt (35 aa)
ORF sequence
ATGACGCTCGCGCAGTTTGCCATGATTTTCTGGCACGACCTGGCAGCACC
GATCCTGGCGGGAATTATTACCGCAGCGATTGTCAGCTGGTGGCGTAACC
GGAAGTAA
→ BLAST sequence
Peptide sequence
MTLAQFAMIFWHDLAAPILAGIITAAIVSWWRNRK*
→ BLAST sequence
Predicted 2D structure PDF, GIF
Hydrophobicity plot PDF, GIF