Gene detail

FTDG_RS02285

Response regulator OmpR family

Francisella tularensis subsp. novicida GA99-3548 · GCF_000154265

Open genome Open selected cluster RefSeq

ClassRRTypeOmpRLength229 aaTM0ValidatedNoCompleteYesContextpaired

Gene IDGCF_000154265#FTDG_RS02285Stable P2CS identifier used across views.

GenomeGCF_000154265Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Thiotrichales; Francisellaceae; Francisella

Selected clusterRROC_1246745Run 7 · 3 sequences · id 100% · cov 80% · representative

External referencesWP_003037410.1 · MIST4 FTDG_RS02285RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

Response_regTrans_reg_C

Protein length229 aaLength used to scale native and Biotite-like views.

Annotated domains22 with usable coordinates.

Domain coverage186 / 229 aa (81.2%)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

Domain view

Native Biotite-like

Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.

1 aa229 aa

Domain-by-domain annotation2 items

1 Response_reg#1

7-117 aa · 111 aa · 48.5% of protein

Raw tokenResponse_reg:7:4.63e-34:117:111:111

2 Trans_reg_C#2

153-227 aa · 75 aa · 32.8% of protein

Raw tokenTrans_reg_C:153:2.76e-28:227:76:77

Raw architecture: Response_reg:7:4.63e-34:117:111:111#Trans_reg_C:153:2.76e-28:227:76:77
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 labelpairedGCF_000154265::NZ_DS264590.1::G00003

Group size22 locus tags listed below.

HK / RR1 / 1Counts resolved for the local TCS neighborhood.

Context span429229-430939Genomic interval covered by the local TCS group.

Identifiers

Old locus tagFTDG_01020RefSeq proteinWP_003037410.1

Context group IDGCF_000154265::NZ_DS264590.1::G00003

Context members

FTDG_RS02285FTDG_RS02280

Partner locus tags

FTDG_RS02285FTDG_RS02280

Partner old locus tags

FTDG_01020FTDG_01021

Partner protein IDs

WP_003037410.1 WP_196218536.1

External references

Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table

No UniProt / GO / PubMed mapping was found for WP_003037410.1.

Genomic coordinates

Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table

Current locus tagFTDG_RS02285Primary locus identifier stored in the genes table.

Old locus tagFTDG_01020Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_DS264590.1Sequence record reported by the local genomic context database.

Genomic interval429 229-429 918 nt690 nt · Forward (+)

StrandForward (+)Strand sign follows the local context database convention.

Local TCS group span429 229-430 939 ntGCF_000154265::NZ_DS264590.1::G00003

Quick actions

Open genome Search genes in genome

Local neighborhood

Graphical neighborhood resolved from the local TCS context group on the current contig

GCF_000154265::NZ_DS264590.1::G00003

Graphic view

Compact Biotite-like

Zoom

Full window Focus gene

Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.

Context labelpairedNeighborhood members are ordered by genomic coordinates.

Contig / repliconNZ_DS264590.1All displayed genes belong to this local TCS context.

Neighborhood span429 229-430 939 nt1 711 nt

Members21 current focus gene

Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.

429 229 nt430 939 nt

+-FTDG_RS02285 FTDG_RS02280

Neighborhood gene cards

2 genes in the current local neighborhood.

FTDG_RS02285GCF_000154265#FTDG_RS02285

RROmpRCurrent focus

429 229-429 918 nt · Forward (+)

Old locus FTDG_01020RefSeq WP_003037410.1

Open current gene

FTDG_RS02280GCF_000154265#FTDG_RS02280

HKClassic

429 968-430 939 nt · Forward (+)

Old locus FTDG_01021RefSeq WP_196218536.1

Open gene

Clusters

CD-HIT memberships and selected cluster details for the current gene class

Available memberships1 cluster

RROC_1246745RR

Run 73 sequencesid 100%cov 80%

PFAM Response_reg + Trans_reg_C

Current gene is the representative sequence.

Selected clusterRROC_1246745Run 7 · RR · 3 sequences

Representative sequenceGCF_000154265#FTDG_RS02285The current gene is the representative for this cluster.

PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.

Open in cluster search

PFAM architecture for RROC_1246745

Simplified PFAM architecture for RROC_1246745

PFAM domain coverage: 182 / 229 aa (79.5%)

1 aa229 aa

Response_regTrans_reg_C

Simplified architecture: Response_reg + Trans_reg_C
Raw architecture: Response_reg[7-116] | Trans_reg_C[155-226]
Domain count: 2
Matched identifier: RROC_1246745
Positioned domains: Response_reg 7-116 ; Response_reg 7-116 ; Trans_reg_C 155-226 ; Trans_reg_C 155-226

Cluster members and taxonomy

Representative gene: GCF_000154265#FTDG_RS02285

Sankey plot built from the taxonomy of all members in the selected cluster.

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 442 346 · GCF_000154265

AssemblyASM15426v1 · Scaffoldhaploid

Genome composition1 858 641 bp · 32,5% GCFrancisella tularensis subsp. novicida GA99-3548

Signal transduction countsGenes 6 · HK 3 · RR 3CheA 0 · PP 0

Ranked taxonomy7 ranked levels available

SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderThiotrichalesFamilyFrancisellaceaeGenusFrancisella

Lineage path7 lineage nodes

1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Thiotrichales6Francisellaceae7Francisella

Open genome Search genes in genome Search RR genes NCBI assembly files

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