Locus TA06175

Locus

ID TA06175 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 1271205-1271568
Genome accession (GenBank) AC_000091.1
Genome map CGView
Genomic context IGV.js
Upstream gene rdlA : regulatory antisense RNA
Within-locus gene ldrB : toxic polypeptide, small
rdlB : regulatory antisense sRNA
Downstream gene ldrC : toxic polypeptide, small

Toxin mRNA

Name ldrB predicted 2D structure (mfold / VARNA)
mRNA structure
Locus_tag NA
Genomic coordinates 1271205-1271568 (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 1271434-1271500 (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 1271280-1271387 (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