P2CS-Web

Candidatus Xianfuyuplasma coldseepsis

Bacteria · Mycoplasmatota · Candidatus Izimaplasma · Candidatus Izemoplasmatales · Candidatus Izemoplasmataceae · Candidatus Xianfuyuplasma

Strain: zrk13

TCS census

Genome-level counts from the current P2CS annotation tables

All genes15Total predicted proteins linked to this genome record.

HK6Histidine kinase predictions in the genes table.

RR9Response regulator predictions in the genes table.

CheA0CheA-like kinase predictions in the genes table.

PP0Phosphatase predictions in the genes table.

Genome overview

Curated genome metadata from the imported catalog and Cheops-linked sources

Genome IDGCF_014023125Stable genome identifier used across P2CS views.

Genome nameCandidatus Xianfuyuplasma coldseepsisNCBI organism name imported through the genome catalogue.

Strain / isolatezrk13Infraspecific name when supplied by the source assembly metadata.

Taxon ID2782163NCBI taxonomic identifier linked to the imported genome catalog.

AssemblyASM1402312v1 · Complete Genomereference genome

Composition1,96 Mb · 38,0% GCGenome size and GC content when available in the catalog.

External recordsPRJNA224116 · SAMN14122514Candidatus Xianfuyuplasma coldseepsis

Taxonomy snapshotBacteria · Mycoplasmatota · Candidatus Izimaplasma · Candidatus Izemoplasmatales · Candidatus Izemoplasmataceae · Candidatus XianfuyuplasmaUnknown

genome_ANI

ANI and taxonomy consistency checks

Taxonomy checkOK

Best-match statuslow-coverage

Best speciesStreptococcus parasuis

Best type assemblyGCA_040545485.1

Best type categorysuspected-type

Best ANI93.48%

Best qcov0,3%

Best scov0,3%

Declared assemblysame

CommentAssembly is the type-strain, no match is expected

genome_checkM

Completeness and contamination estimates

Completeness99,1%

Contamination0,0%

Marker setBacteria

genome_genbank

Assembly and annotation metadata

Organism nameCandidatus Xianfuyuplasma coldseepsis

Infraspecificstrain=zrk13

Version statuslatest

Release typeMajor

Genome representationFull

Sequence release2020-07-31

SubmitterCHINESE ACADEMY OF SCIENCES

Type materialassembly from type material

Groupbacteria

Ungapped size1 958 905

Replicons1

Scaffolds1

Contigs1

Annotation providerNCBI

Annotation nameNCBI Prokaryotic Genome Annotation Pipeline (PGAP)

Annotation date2020-02-20

Total genes1915

Protein-coding1862

Non-coding48

Genome circular map

Circos-like overview of the selected replicon with central GC, strand-specific genes, zoomable coordinates, and TCS organization markers

Genes on + strand Genes on - strand HK RR CheA PP/Hpt GC% GC skew Cumulative GC skew Composition baseline

Context Orphan (0) Pair (0) Triad (0) Tetrad (0) Pentad (0) Pentad+ (0) Not in context (15)

Linear chromosome and composition views

Linear overview of the selected replicon, with strand-separated genes and composition plots aligned on the same genomic coordinate system.

Genes on + strand Genes on - strand HK RR CheA PP/Hpt

Sources

GFF: GCF_014023125.gff.gz · Sequence: GCF_014023125.1_ASM1402312v1_genomic.fna.gz

TCS Organization

Click a count to filter the gene list below

Orphan	Pair	Triad	Tetrad	Pentad	Pentad+	Not in context
6 (6 genes)	4 (8 genes)	0 (0 gene)	0 (0 gene)	0 (0 gene)	0 (0 gene)	1 (1 gene)

Not in context = predicted HK, RR, and PP genes missing from the TCS context database.

Gene distribution

Total proteins: 15

HK6proteins in this genome

P2CS Predicted Histidine Kinases

P2CS Predicted Histidine Kinases (6 proteins across 2 families) · Phylogenetic Tree · Data Heatmap

Genome total 6Database total 12 517 906Click counts to filter the genome gene list

Family distribution

Genome composition on the right, clickable family counts on the left, and a genome-vs-database radar plot.

Family composition

Pie, bar, or treemap view for the current genome.

Genome vs database radar

Percent of each family in this genome compared with the whole P2CS database.

RR9proteins in this genome

P2CS Predicted Response Regulators

P2CS Predicted Response Regulators (9 proteins across 3 families) · Phylogenetic Tree · Data Heatmap

Genome total 9Database total 12 774 395Click counts to filter the genome gene list

Family distribution

Genome composition on the right, clickable family counts on the left, and a genome-vs-database radar plot.

Family composition

Pie, bar, or treemap view for the current genome.

Genome vs database radar

Percent of each family in this genome compared with the whole P2CS database.

PP0proteins in this genome

P2CS Predicted PP / Hpt Proteins

P2CS Predicted PP / Hpt Proteins (0 proteins across 0 families) · Phylogenetic Tree · Data Heatmap

Genome total 0Database total 0Click counts to filter the genome gene list

Family distribution

Genome composition on the right, clickable family counts on the left, and a genome-vs-database radar plot.

No pp / hpt proteins were predicted for this genome.

P2CS shortcuts

Classic entry points plus a collapsible genome protein list at the end of the page

All genes HK RR CheA PP Orphan Pair Triad Pentad+

Genome proteins

Full genome protein list with the same filters, grouped contexts, and links to the browser or gene detail pages.

Open this section to load the genome protein list.

Selected gene

Inline mode is active

Choose a gene from the list above to display its details below the genome sheet.