Locus TA03825

Locus

ID TA03825 genomic context (Gviz / IGV.js)
genomic context
Family CD/RCd
Organism Clostridioides difficile 630
Taxonomy Bacteria; Firmicutes; Clostridia; Clostridiales; Peptostreptococcaceae; Clostridioides; Clostridioides difficile 630
Genomic location chromosome
Genomic coordinates 2665191-2665491
Genome accession (GenBank) NC_009089.1
Genome map CGView
Genomic context IGV.js
Upstream gene CD630_RS12405 : SHOCT domain-containing protein
Within-locus gene CD630_RS19805 : hypothetical protein
Downstream gene CD630_RS12410 : DUF6054 family protein

Toxin mRNA

Name CD2299.1 predicted 2D structure (mfold / VARNA)
mRNA structure
Locus_tag
Genomic coordinates 2665191-2665491 (strand -)
Length 301 nt
Sequence
(with 50 nt upstream, and -10 box in red; mRNA/asRNA interaction region underlined; toxin ORF in blue; transcript sequence in UPPERCASE)
aaagtaagatataggaaaaatatgtaagaattatatattataataattgt
AGCAAGAAGATGTAATCTACAATTTATAGAGTGGAGTTCATGTATTAAAA
AATTATCCTCCCAACGATAAGAAGGGAGGTGAATATACATGGATAATTTT
TTATTTAATGTGTTAGCTAGTGTAACAGCTAGTTACATAGTTTATTTGAT
TAGCAAGTTAATCAAAAAAGTAAAAAGCCACTCTACCGCAAAGAGTGACT
TAAAGATTGATATAAATTTTAAATATCATCGTAAAAAATAACTTTCAGTT
ATAGAACTTCACTCTACCGCAAATAGATTGTAGTTCTTCTTGCTTTTATT
A
→ BLAST sequence
Predicted 2D structure PDF, PNG

Antitoxin asRNA

Name SQ1641 predicted 2D structure (mfold / VARNA)
sRNA structure
Locus_tag
Genomic coordinates 2665201-2665330 (strand +)
Length 130 nt
Sequence
(with 50 nt upstream, and -10 box in red; transcript sequence in UPPERCASE)
taaaaaatattatatgcaatattttttctaatttgtggtataataaaagc
AAGAAGAACTACAATCTATTTGCGGTAGAGTGAAGTTCTATAACTGAAAG
TTATTTTTTACGATGATATTTAAAATTTATATCAATCTTTAAGTCACTCT
TTGCGGTAGAGTGGCTTTTTACTTTTTTGA
→ BLAST sequence
Predicted 2D structure PDF, PNG

Toxin Peptide

Name CD2299.1 predicted 2D structure (PSIPRED / POLYVIEW-2D)
peptide structurepeptide structure legend

hydrophobicity plot (ProtScale)
peptide hydrophobicity
Locus_tag
ORF genomic coordinates 2665251-2665403 (strand -)
ORF length (peptide length) 153 nt (50 aa)
ORF sequence
ATGGATAATTTTTTATTTAATGTGTTAGCTAGTGTAACAGCTAGTTACAT
AGTTTATTTGATTAGCAAGTTAATCAAAAAAGTAAAAAGCCACTCTACCG
CAAAGAGTGACTTAAAGATTGATATAAATTTTAAATATCATCGTAAAAAA
TAA
→ BLAST sequence
Peptide sequence
MDNFLFNVLASVTASYIVYLISKLIKKVKSHSTAKSDLKIDINFKYHRKK
*
→ BLAST sequence
Predicted 2D structure PDF, GIF
Hydrophobicity plot PDF, GIF