Locus TA06174

Locus

ID TA06174 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 1270670-1271028
Genome accession (GenBank) AC_000091.1
Genome map CGView
Genomic context IGV.js
Upstream gene kdsA : 3-deoxy-D-manno-octulosonate 8-phosphate synthase
Within-locus gene ldrA : toxic polypeptide, small
rdlA : regulatory antisense RNA
Downstream gene ldrB : toxic polypeptide, small

Toxin mRNA

Name ldrA predicted 2D structure (mfold / VARNA)
mRNA structure
Locus_tag NA
Genomic coordinates 1270670-1271028 (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 1270909-1270964 (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 1270745-1270852 (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