Gene detail

FTCG_RS00035

Response regulator OmpR family

Francisella tularensis subsp. novicida GA99-3549 · GCF_000154185

Open genome Open selected cluster RefSeq

ClassRRTypeOmpRLength228 aaTM0ValidatedNoCompleteYesContextorphan

Gene IDGCF_000154185#FTCG_RS00035Stable P2CS identifier used across views.

GenomeGCF_000154185Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Thiotrichales; Francisellaceae; Francisella

Selected clusterRROC_1302081Run 7 · 10 sequences · id 100% · cov 80% · representative

External referencesWP_004339064.1 · MIST4 FTCG_RS00035RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

Response_regTrans_reg_C

Protein length228 aaLength used to scale native and Biotite-like views.

Annotated domains22 with usable coordinates.

Domain coverage186 / 228 aa (81.6%)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

Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.

Biotite-like domain view for FTCG_RS00035

Domain-by-domain annotation2 items

1 Response_reg#1

5-114 aa · 110 aa · 48.2% of protein

Raw tokenResponse_reg:5:1.98e-29:114:111:111

2 Trans_reg_C#2

149-224 aa · 76 aa · 33.3% of protein

Raw tokenTrans_reg_C:149:8.13e-22:224:77:77

Raw architecture: Response_reg:5:1.98e-29:114:111:111#Trans_reg_C:149:8.13e-22:224:77:77
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 labelorphanGCF_000154185::NZ_DS264131.1::G00001

Group size11 locus tag listed below.

HK / RR0 / 1Counts resolved for the local TCS neighborhood.

Context span62074-62760Genomic interval covered by the local TCS group.

Identifiers

Old locus tagFTCG_01714RefSeq proteinWP_004339064.1

Context group IDGCF_000154185::NZ_DS264131.1::G00001

Context members

FTCG_RS00035

Partner locus tags

FTCG_RS00035

Partner old locus tags

FTCG_01714

Partner protein IDs

WP_004339064.1

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_004339064.1.

Genomic coordinates

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

Current locus tagFTCG_RS00035Primary locus identifier stored in the genes table.

Old locus tagFTCG_01714Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_DS264131.1Sequence record reported by the local genomic context database.

Genomic interval62 074-62 760 nt687 nt · Reverse (-)

StrandReverse (-)Strand sign follows the local context database convention.

Local TCS group span62 074-62 760 ntGCF_000154185::NZ_DS264131.1::G00001

Quick actions

Open genome Search genes in genome

Local neighborhood

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

GCF_000154185::NZ_DS264131.1::G00001

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 labelorphanNeighborhood members are ordered by genomic coordinates.

Contig / repliconNZ_DS264131.1All displayed genes belong to this local TCS context.

Neighborhood span62 074-62 760 nt687 nt

Members11 current focus gene

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

62 074 nt62 760 nt

+-FTCG_RS00035

Neighborhood gene cards

1 gene in the current local neighborhood.

FTCG_RS00035GCF_000154185#FTCG_RS00035

RROmpRCurrent focus

62 074-62 760 nt · Reverse (-)

Old locus FTCG_01714RefSeq WP_004339064.1

Open current gene

Clusters

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

Available memberships1 cluster

RROC_1302081RR

Run 710 sequencesid 100%cov 80%

PFAM Response_reg + Trans_reg_C

Current gene is the representative sequence.

Selected clusterRROC_1302081Run 7 · RR · 10 sequences

Representative sequenceGCF_000154185#FTCG_RS00035The 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_1302081

Simplified PFAM architecture for RROC_1302081

PFAM domain coverage: 185 / 228 aa (81.1%)

1 aa228 aa

Response_regTrans_reg_C

Simplified architecture: Response_reg + Trans_reg_C
Raw architecture: Response_reg[5-114] | Trans_reg_C[150-224]
Domain count: 2
Matched identifier: RROC_1302081
Positioned domains: Response_reg 5-114 ; Response_reg 5-114 ; Trans_reg_C 150-224 ; Trans_reg_C 150-224

Cluster members and taxonomy

Representative gene: GCF_000154185#FTCG_RS00035

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

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 430 558 · GCF_000154185

AssemblyASM15418v1 · Scaffoldhaploid

Genome composition1 901 304 bp · 32,0% GCFrancisella tularensis subsp. novicida GA99-3549

Signal transduction countsGenes 7 · HK 3 · RR 4CheA 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

Related genes

Preview from the same derived genome key