1 Response_reg#1
5-112 aa · 108 aa · 48.0% of protein
Raw token
Response_reg:5:6.28e-26:112:109:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
ITJ12_RS04425
Response regulator OmpR family
Clostridioides difficile · GCF_015352235
ClassRRTypeOmpRLength225 aaTM0ValidatedNoCompleteYesContextpentad
Gene IDGCF_015352235#ITJ12_RS04425Stable P2CS identifier used across views.
GenomeGCF_015352235Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length225 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage185 / 225 aa (82.2%)Merged over positioned domains only.
Domain description1 Response_reg,1 Trans_reg_CSummary string stored in the genes table.
Signal peptideUnavailableNo TMPRED prediction file matched this gene.
Transmembrane helicesUnavailableConfigure [protein_features] tmpred_root_dir to enable this annotation.
Complete domain annotations
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa225 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
147-223 aa · 77 aa · 34.2% of protein
Raw token
Trans_reg_C:147:1.15e-29:223:77:77- Raw architecture: Response_reg:5:6.28e-26:112:109:111#Trans_reg_C:147:1.15e-29:223:77:77
- Domain description: 1 Response_reg,1 Trans_reg_C
- TM description: N/A
- TMPRED source: No TMPRED file loaded
- TMPRED segments: N/A
- Complete: Yes
Context mapping
Resolved via p2cs_tcs_context.db when a locus tag match exists
Context labelpentadGCF_015352235::NZ_JADKQV010000002.1::G00041
Group size55 locus tags listed below.
HK / RR2 / 3Counts resolved for the local TCS neighborhood.
Context span227309-233034Genomic interval covered by the local TCS group.
Identifiers
Old locus tagITJ12_04415RefSeq proteinWP_009891739.1
Context group ID
GCF_015352235::NZ_JADKQV010000002.1::G00041Context members
ITJ12_RS04405ITJ12_RS04410ITJ12_RS04415ITJ12_RS04420ITJ12_RS04425
Partner locus tags
ITJ12_RS04405ITJ12_RS04410ITJ12_RS04415ITJ12_RS04420ITJ12_RS04425
Partner old locus tags
ITJ12_04395ITJ12_04400ITJ12_04405ITJ12_04410ITJ12_04415
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009891739.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3N6D2Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3N6D2_CLODCDisplay identifier provided by UniProt.
GO / PubMed5 / 1Unique GO terms and literature references available below.
Reference hubs
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagITJ12_RS04425Primary locus identifier stored in the genes table.
Old locus tagITJ12_04415Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JADKQV010000002.1Sequence record reported by the local genomic context database.
Genomic interval232 357-233 034 nt678 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span227 309-233 034 ntGCF_015352235::NZ_JADKQV010000002.1::G00041
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_015352235::NZ_JADKQV010000002.1::G00041Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelpentadNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_JADKQV010000002.1All displayed genes belong to this local TCS context.
Neighborhood span227 309-233 034 nt5 726 nt
Members51 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
227 309 nt233 034 nt
Neighborhood gene cards
5 genes in the current local neighborhood.
ITJ12_RS04405GCF_015352235#ITJ12_RS04405
HKClassic
227 309-228 424 nt · Reverse (-)
ITJ12_RS04410GCF_015352235#ITJ12_RS04410
RROmpR
228 460-229 158 nt · Reverse (-)
ITJ12_RS04415GCF_015352235#ITJ12_RS04415
RROmpR
229 540-230 220 nt · Reverse (-)
ITJ12_RS04420GCF_015352235#ITJ12_RS04420
HKClassic
230 270-232 285 nt · Reverse (-)
ITJ12_RS04425GCF_015352235#ITJ12_RS04425
RROmpRCurrent focus
232 357-233 034 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0216535Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1462539
Simplified PFAM architecture for RROC_1462539
PFAM domain coverage: 185 / 225 aa (82.2%)
1 aa225 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-112] | Trans_reg_C[147-223]
- Domain count: 2
- Matched identifier: RROC_1462539
- Positioned domains: Response_reg 5-112 ; Response_reg 5-112 ; Trans_reg_C 147-223 ; Trans_reg_C 147-223
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0216535
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_015352235
AssemblyASM1535223v1 · Scaffoldhaploid
Genome composition4 107 095 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 106 · HK 50 · RR 56CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key