Locus TA03826

Locus

ID TA03826 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 2908114-2908421
Genome accession (GenBank) NC_009089.1
Genome map CGView
Genomic context IGV.js
Upstream gene
Within-locus gene CD630_RS19820 : hypothetical protein
Downstream gene CD630_RS13515 : cell wall-binding protein Cwp29

Toxin mRNA

Name CD2517.1 predicted 2D structure (mfold / VARNA)
mRNA structure
Locus_tag
Genomic coordinates 2908114-2908421 (strand -)
Length 308 nt
Sequence
(with 50 nt upstream, and -10 box in red; mRNA/asRNA interaction region underlined; toxin ORF in blue; transcript sequence in UPPERCASE)
aaagtaataaataggtaaaatatgtaagaattatatgttataatattttt
AGCAAGAAGATGTAATCTACAATTTATAGAGTGGAGTTCATGTATCAAAA
AATTATCCTCCCGACGTTAAGAAGGGAGGTGAATATACATGGATAATTTT
TTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGC
TAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGA
GTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTT
CTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGC
TTTTATTA
→ BLAST sequence
Predicted 2D structure PDF, PNG

Antitoxin asRNA

Name RCd8 predicted 2D structure (mfold / VARNA)
sRNA structure
Locus_tag
Genomic coordinates 2908124-2908258 (strand +)
Length 135 nt
Sequence
(with 50 nt upstream, and -10 box in red; transcript sequence in UPPERCASE)
taaaaatattatttttgaatatctgtaccaatttgtgatataataaaagc
AAGAAGAACTACAATCTATTTTGCTGTAGAGTGGAGTTCATAATTTAGAA
ATTACTTAGTTTTATGGAATCTGATTTTTAAATCAAATTCCCAACCACTC
TTAGTTGCCGCTTTGAGTGGTTTTTTACGCTTTCT
→ BLAST sequence
Predicted 2D structure PDF, PNG

Toxin Peptide

Name CD2517.1 predicted 2D structure (PSIPRED / POLYVIEW-2D)
peptide structurepeptide structure legend

hydrophobicity plot (ProtScale)
peptide hydrophobicity
Locus_tag
ORF genomic coordinates 2908175-2908333 (strand -)
ORF length (peptide length) 159 nt (52 aa)
ORF sequence
ATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAAT
AGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAG
CGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAA
ACTAAGTAA
→ BLAST sequence
Peptide sequence
MDNFLQGILASLSASLIVYIASKLFRKRKKPLKAATKSGWEFDLKIRFHK
TK*
→ BLAST sequence
Predicted 2D structure PDF, GIF
Hydrophobicity plot PDF, GIF