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 05-Nov-2025 from the annotated genome of Sunxiuqinia elliptica CGMCC 1.9156, as obtained from RefSeq (annotation date: 09-NOV-2024). The PGDB was created computationally by the PathoLogic component of the Pathway Tools software (version 29.5) [Karp11, Karp16] using MetaCyc version 29.5 [Caspi20]. It has not undergone any manual curation or review, and may contain errors.
Genome
ContigTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
NZ_FONW01000001930921901,186,700RefSeq:NZ_FONW01000001
NZ_FONW0100000275474772922,944RefSeq:NZ_FONW01000002
NZ_FONW0100000325225020356,673RefSeq:NZ_FONW01000003
NZ_FONW0100000422922810278,758RefSeq:NZ_FONW01000004
NZ_FONW0100000521020640276,001RefSeq:NZ_FONW01000005
NZ_FONW0100000619919721240,828RefSeq:NZ_FONW01000006
NZ_FONW0100000717617510224,926RefSeq:NZ_FONW01000007
NZ_FONW0100000818518140217,324RefSeq:NZ_FONW01000008
NZ_FONW0100000917717340206,533RefSeq:NZ_FONW01000009
NZ_FONW0100001014113922187,443RefSeq:NZ_FONW01000010
NZ_FONW0100001113413131155,961RefSeq:NZ_FONW01000011
NZ_FONW0100001211911811155,790RefSeq:NZ_FONW01000012
NZ_FONW01000013939211126,568RefSeq:NZ_FONW01000013
NZ_FONW01000014848400109,545RefSeq:NZ_FONW01000014
NZ_FONW0100001576724094,762RefSeq:NZ_FONW01000015
NZ_FONW0100001665650083,214RefSeq:NZ_FONW01000016
NZ_FONW0100001767653075,559RefSeq:NZ_FONW01000017
NZ_FONW0100001855550274,431RefSeq:NZ_FONW01000018
NZ_FONW0100001947470060,752RefSeq:NZ_FONW01000019
NZ_FONW0100002032311039,706RefSeq:NZ_FONW01000020
6 Undisplayed Contigs/Replicons17125019,906
Total:4,0523,98954105,094,324
Ortholog data available?Yes
Database Contents
Genes4,042
Pathways253
Enzymatic Reactions1,414
Transport Reactions75
Polypeptides4,026
Protein Complexes49
Enzymes760
Transporters354
Compounds1,279
Transcription Units3,011
tRNAs46
GO Annotations4,531
Database Version29.6
Sequence SourceGCF_900113005.1
Synonyms Bacteroidetes bacterium DQHS-15
Bacteroidetes bacterium DQHS-4
Bacteroidetes bacterium DQHS-8
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadati
FCB group
Bacteroidota/Chlorobiota group
Bacteroidota
Bacteroidia
Marinilabiliales
Prolixibacteraceae
Sunxiuqinia
Sunxiuqinia elliptica
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN05216283
NCBI BioProjectPRJNA224116
NCBI-Taxonomy655355
Annotation ProviderNCBI RefSeq
Annotation Date2024-11-6
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version6.8
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

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