Gene detail

BGV21_RS07195

Response regulator OmpR family

Clostridioides difficile · GCF_002303105

Open genome Open selected cluster RefSeq

ClassRRTypeOmpRLength228 aaTM0ValidatedNoCompleteYesContextpaired

Gene IDGCF_002303105#BGV21_RS07195Stable P2CS identifier used across views.

GenomeGCF_002303105Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides

Selected clusterRROC_1312073Run 7 · 6 sequences · id 100% · cov 80%

External referencesWP_070442099.1 · MIST4 BGV21_RS07195RefSeq · 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

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

1 aa228 aa

Domain-by-domain annotation2 items

1 Response_reg#1

4-113 aa · 110 aa · 48.2% of protein

Raw tokenResponse_reg:4:6.33e-29:113:111:111

2 Trans_reg_C#2

146-221 aa · 76 aa · 33.3% of protein

Raw tokenTrans_reg_C:146:7.67e-24:221:78:77

Raw architecture: Response_reg:4:6.33e-29:113:111:111#Trans_reg_C:146:7.67e-24:221:78:77
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_002303105::NZ_MPFT01000015.1::G00025

Group size22 locus tags listed below.

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

Context span27694-29401Genomic interval covered by the local TCS group.

Identifiers

Old locus tagBGV21_07145RefSeq proteinWP_070442099.1

Context group IDGCF_002303105::NZ_MPFT01000015.1::G00025

Context members

BGV21_RS07195BGV21_RS07200

Partner locus tags

BGV21_RS07195BGV21_RS07200

Partner old locus tags

BGV21_07145BGV21_07150

Partner protein IDs

WP_070442099.1 WP_021408311.1

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_070442099.1.

Genomic coordinates

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

Current locus tagBGV21_RS07195Primary locus identifier stored in the genes table.

Old locus tagBGV21_07145Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_MPFT01000015.1Sequence record reported by the local genomic context database.

Genomic interval27 694-28 380 nt687 nt · Forward (+)

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

Local TCS group span27 694-29 401 ntGCF_002303105::NZ_MPFT01000015.1::G00025

Quick actions

Open genome Search genes in genome

Local neighborhood

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

GCF_002303105::NZ_MPFT01000015.1::G00025

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_MPFT01000015.1All displayed genes belong to this local TCS context.

Neighborhood span27 694-29 401 nt1 708 nt

Members21 current focus gene

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

27 694 nt29 401 nt

+-BGV21_RS07195 BGV21_RS07200

Neighborhood gene cards

2 genes in the current local neighborhood.

BGV21_RS07195GCF_002303105#BGV21_RS07195

RROmpRCurrent focus

27 694-28 380 nt · Forward (+)

Old locus BGV21_07145RefSeq WP_070442099.1

Open current gene

BGV21_RS07200GCF_002303105#BGV21_RS07200

HKClassic

28 370-29 401 nt · Forward (+)

Old locus BGV21_07150RefSeq WP_021408311.1

Open gene

Clusters

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

Available memberships1 cluster

RROC_1312073RR

Run 76 sequencesid 100%cov 80%

PFAM Response_reg + Trans_reg_C

Representative GCF_002301165#BGU11_RS06745

Selected clusterRROC_1312073Run 7 · RR · 6 sequences

Representative sequenceGCF_002301165#BGU11_RS06745Use this link to inspect the representative gene detail.

PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.

Open in cluster search Open representative gene

PFAM architecture for RROC_1312073

Simplified PFAM architecture for RROC_1312073

PFAM domain coverage: 184 / 228 aa (80.7%)

1 aa228 aa

Response_regTrans_reg_C

Simplified architecture: Response_reg + Trans_reg_C
Raw architecture: Response_reg[4-112] | Trans_reg_C[146-220]
Domain count: 2
Matched identifier: RROC_1312073
Positioned domains: Response_reg 4-112 ; Response_reg 4-112 ; Trans_reg_C 146-220 ; Trans_reg_C 146-220

Cluster members and taxonomy

Representative gene: GCF_002301165#BGU11_RS06745

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

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 1 496 · GCF_002303105

AssemblyASM230310v1 · Contighaploid

Genome composition4 397 851 bp · 28,5% GCClostridioides difficile

Signal transduction countsGenes 95 · HK 45 · RR 50CheA 1 · PP 0

Ranked taxonomy7 ranked levels available

SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides

Lineage path7 lineage nodes

1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides

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

Related genes

Preview from the same derived genome key