Locus TA06180

Locus

ID TA06180 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 1270163-1270525
Genome accession (GenBank) NC_000913.3
Genome map CGView
Genomic context IGV.js
Upstream gene rdlB : putative antisense regulatory RNA RdlB
Within-locus gene ldrC : small toxic polypeptide LdrC
rdlC : putative antisense regulatory RNA RdlC
Downstream gene chaA : Na(+)/K(+):H(+) antiporter ChaA

Toxin mRNA

Name ldrC predicted 2D structure (mfold / VARNA)
mRNA structure
Locus_tag NA
Genomic coordinates 1270163-1270525 (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 1270401-1270457 (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 1270238-1270345 (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