Database Authors
Pallavi Subhraveti1, Anamika Kothari1, Peter Midford1, Ron Caspi1, Lisa Moore1, Peter D Karp1
1SRI International
Summary This Pathway/Genome Database (PGDB) was generated on 30-Oct-2024 from the annotated genome of Actinobacillus pleuropneumoniae serovar 12 str. 1096, as obtained from RefSeq (annotation date: 27-MAR-2024). The PGDB was created computationally by the PathoLogic component of the Pathway Tools software (version 28.5) [Karp11, Karp16] using MetaCyc version 28.1 [Caspi20]. It has not undergone any manual curation or review, and may contain errors.
Genome
ContigTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
NZ_ADOL0100002123922298255,297RefSeq:NZ_ADOL01000021
NZ_ADOL0100003014714043152,110RefSeq:NZ_ADOL01000030
NZ_ADOL010000101009811122,201RefSeq:NZ_ADOL01000010
NZ_ADOL0100005111511122111,218RefSeq:NZ_ADOL01000051
NZ_ADOL010000041049815108,689RefSeq:NZ_ADOL01000004
NZ_ADOL010000281069943107,808RefSeq:NZ_ADOL01000028
NZ_ADOL01000014948617101,261RefSeq:NZ_ADOL01000014
NZ_ADOL0100004272644473,281RefSeq:NZ_ADOL01000042
NZ_ADOL0100002757530471,030RefSeq:NZ_ADOL01000027
NZ_ADOL0100004558570160,811RefSeq:NZ_ADOL01000045
NZ_ADOL0100000151510055,214RefSeq:NZ_ADOL01000001
NZ_ADOL0100004768671054,760RefSeq:NZ_ADOL01000047
NZ_ADOL0100000953511153,681RefSeq:NZ_ADOL01000009
NZ_ADOL0100005049490050,708RefSeq:NZ_ADOL01000050
NZ_ADOL0100002533310246,198RefSeq:NZ_ADOL01000025
NZ_ADOL0100000345430244,100RefSeq:NZ_ADOL01000003
NZ_ADOL0100000640381141,513RefSeq:NZ_ADOL01000006
NZ_ADOL0100000739360340,884RefSeq:NZ_ADOL01000007
NZ_ADOL0100004639380139,707RefSeq:NZ_ADOL01000046
NZ_ADOL0100000237370038,352RefSeq:NZ_ADOL01000002
NZ_ADOL0100003240364035,299RefSeq:NZ_ADOL01000032
NZ_ADOL0100003831310033,557RefSeq:NZ_ADOL01000038
NZ_ADOL0100003432310132,517RefSeq:NZ_ADOL01000034
NZ_ADOL0100001926260031,741RefSeq:NZ_ADOL01000019
NZ_ADOL0100004835314030,790RefSeq:NZ_ADOL01000048
NZ_ADOL0100004138326028,831RefSeq:NZ_ADOL01000041
NZ_ADOL0100001724221128,060RefSeq:NZ_ADOL01000017
NZ_ADOL0100002929270227,386RefSeq:NZ_ADOL01000029
NZ_ADOL0100004428280025,482RefSeq:NZ_ADOL01000044
NZ_ADOL0100002015140124,331RefSeq:NZ_ADOL01000020
NZ_ADOL0100001215150022,873RefSeq:NZ_ADOL01000012
NZ_ADOL0100001819180122,446RefSeq:NZ_ADOL01000018
NZ_ADOL0100002322220021,159RefSeq:NZ_ADOL01000023
NZ_ADOL0100004915150017,819RefSeq:NZ_ADOL01000049
NZ_ADOL0100001615150016,777RefSeq:NZ_ADOL01000016
NZ_ADOL0100003916151016,344RefSeq:NZ_ADOL01000039
NZ_ADOL0100003514140015,316RefSeq:NZ_ADOL01000035
NZ_ADOL0100005413120115,012RefSeq:NZ_ADOL01000054
NZ_ADOL0100003611110014,403RefSeq:NZ_ADOL01000036
NZ_ADOL0100005714112110,968RefSeq:NZ_ADOL01000057
23 Undisplayed Contigs/Replicons60573694,212
Total:2,0641,95250622,194,146
Ortholog data available?No
Database Contents
Genes2,064
Pathways278
Enzymatic Reactions1,519
Transport Reactions107
Polypeptides1,993
Protein Complexes81
Enzymes693
Transporters249
Compounds1,354
Transcription Units1,457
tRNAs44
Protein Features2,871
GO Terms3,462
Database Version29.0
Sequence SourceGCF_000178635.1
Synonyms Actinobacillus pleuropneumoniae 1096
Actinobacillus pleuropneumoniae serovar 12 strain 1096
Actinobacillus pleuropneumoniae serovar 12 str. 1096
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Pasteurellales
Pasteurellaceae
Actinobacillus
Actinobacillus pleuropneumoniae
Actinobacillus pleuropneumoniae serovar 12
Actinobacillus pleuropneumoniae serovar 12 str. 1096
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN02469623
NCBI BioProjectPRJNA224116
NCBI-Taxonomy754261
Annotation ProviderNCBI RefSeq
Annotation Date2024-03-27
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version6.7
Annotation CommentBest-placed reference protein set; GeneMarkS-2+

References

Caspi20: Caspi R, Billington R, Keseler IM, Kothari A, Krummenacker M, Midford PE, Ong WK, Paley S, Subhraveti P, Karp PD (2020). "The MetaCyc database of metabolic pathways and enzymes - a 2019 update." Nucleic Acids Res 48(D1);D445-D453. PMID: 31586394

Karp11: Karp PD, Latendresse M, Caspi R (2011). "The pathway tools pathway prediction algorithm." Stand Genomic Sci 5(3);424-9. PMID: 22675592

Karp16: Karp PD, Latendresse M, Paley SM, Krummenacker M, Ong QD, Billington R, Kothari A, Weaver D, Lee T, Subhraveti P, Spaulding A, Fulcher C, Keseler IM, Caspi R (2016). "Pathway Tools version 19.0 update: software for pathway/genome informatics and systems biology." Brief Bioinform 17(5);877-90. PMID: 26454094

Report Errors or Provide Feedback
Page generated by Pathway Tools version 29.0 (software by SRI International) on Mon Jun 30, 2025, BIOCYC18A.