Locus TA06179

Locus

ID TA06179 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 1269628-1269991
Genome accession (GenBank) NC_000913.3
Genome map CGView
Genomic context IGV.js
Upstream gene rdlA : putative antisense regulatory RNA RdlA
Within-locus gene ldrB : small toxic polypeptide LdrB
rdlB : putative antisense regulatory RNA RdlB
Downstream gene ldrC : small toxic polypeptide LdrC

Toxin mRNA

Name ldrB predicted 2D structure (mfold / VARNA)
mRNA structure
Locus_tag NA
Genomic coordinates 1269628-1269991 (strand -)
Length 364 nt
Sequence
(with 50 nt upstream, and -10 box in red; mRNA/asRNA interaction region underlined; toxin ORF in blue; transcript sequence in UPPERCASE)
acatttcagggatgaagtgaagatgaattgagacgtagtatccacaccaa
GCCGGAATTATCCGGTGAGGCGCAATGTTGCGGGGGCTTTATCCCTGGTG
GCATTGGTTGCTGGAAAGAGAAAACCCCCGCACGTTGAGAGGTAAAACCT
GACAACAGAACGGGGGCTAATCTTGAAACCAGACACTTCAAGAATAGCCG
CAAAATGTTGTCATTACAACAAGGCGGCTATATGACGCTCGCGCAGTTTG
CCATGACTTTCTGGCACGACCTGGCGGCACCGATCCTGGCGGGAATTATT
ACCGCAGCGATTGTCGGCTGGTGGCGTAACCGGAAGTAAGGTGAAAACGG
GCGTCAGGCTGCCGTGATGGCAATATGCGCCCGAAACCGGCCGCAGGGGT
AACAGCCTGCGGCC
→ BLAST sequence
Predicted 2D structure PDF, PNG

Antitoxin asRNA

Name rdlB predicted 2D structure (mfold / VARNA)
sRNA structure
Locus_tag NA
Genomic coordinates 1269857-1269923 (strand +)
Length 67 nt
Sequence
(with 50 nt upstream, and -10 box in red; transcript sequence in UPPERCASE)
tcatatagccgccttgttgtaatgacaacattttgcggctattcttgaag
TGTCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCA
ACGTGCGGGGGTTTTCT
→ BLAST sequence
Predicted 2D structure PDF, PNG

Toxin Peptide

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

hydrophobicity plot (ProtScale)
peptide hydrophobicity
Locus_tag NA
ORF genomic coordinates 1269703-1269810 (strand -)
ORF length (peptide length) 108 nt (35 aa)
ORF sequence
ATGACGCTCGCGCAGTTTGCCATGACTTTCTGGCACGACCTGGCGGCACC
GATCCTGGCGGGAATTATTACCGCAGCGATTGTCGGCTGGTGGCGTAACC
GGAAGTAA
→ BLAST sequence
Peptide sequence
MTLAQFAMTFWHDLAAPILAGIITAAIVGWWRNRK*
→ BLAST sequence
Predicted 2D structure PDF, GIF
Hydrophobicity plot PDF, GIF