Locus TA06176

Locus

ID TA06176 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 1271740-1272102
Genome accession (GenBank) AC_000091.1
Genome map CGView
Genomic context IGV.js
Upstream gene rdlB : regulatory antisense sRNA
Within-locus gene ldrC : toxic polypeptide, small
rdlC : regulatory antisense sRNA
Downstream gene chaA : calcium/sodium:proton antiporter

Toxin mRNA

Name ldrC predicted 2D structure (mfold / VARNA)
mRNA structure
Locus_tag NA
Genomic coordinates 1271740-1272102 (strand -)
Length 363 nt
Sequence
(with 50 nt upstream, and -10 box in red; mRNA/asRNA interaction region underlined; toxin ORF in blue; transcript sequence in UPPERCASE)
acatttcagggatgaagtgaagatgaattgcgacgtagtatccacaccaa
GCCGGCGTTATCCGGTGAGGCGCAATGTTGCGGGGCTTTATCCCTGGTGG
CATTGGTTGCTGGAAAGAGAAAACCCCCGCACGTTGAGAGGTAAAACCTG
ACAACAAAACGGGGGCTAATCTTGAAACCAGACACTTCAAGAATAGCCGC
AAAATGTTGTCATTACAACAAGGCGGCTATATGACGCTCGCGCAGTTTGC
CATGATTTTCTGGCACGACCTGGCAGCACCGATCCTGGCGGGAATTATTA
CCGCAGCGATTGTCAGCTGGTGGCGTAACCGGAAGTAAGGTGAAAACGGG
CGTCAGGCTGCCGTGATGGCAATATGCGCCCGAAACCGGCCGCAGGGGTA
ACAGCCTGCGGCC
→ BLAST sequence
Predicted 2D structure PDF, PNG

Antitoxin asRNA

Name rdlC predicted 2D structure (mfold / VARNA)
sRNA structure
Locus_tag NA
Genomic coordinates 1271978-1272034 (strand +)
Length 57 nt
Sequence
(with 50 nt upstream, and -10 box in red; transcript sequence in UPPERCASE)
cgccttgttgtaatgacaacattttgcggctattcttgaagtgtctggtt
TCAAGATTAGCCCCCGTTTTGTTGTCAGGTTTTACCTCTCAACGTGCGGG
GGTTTTC
→ BLAST sequence
Predicted 2D structure PDF, PNG

Toxin Peptide

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

hydrophobicity plot (ProtScale)
peptide hydrophobicity
Locus_tag NA
ORF genomic coordinates 1271815-1271922 (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