Gene detail

I4V68_RS02810

Response regulator, RpfG family

Roseburia faecis · GCF_015669935

Open genome Open selected cluster RefSeq

ClassRRTypeRpfGLength657 aaTM0ValidatedNoCompleteYesContextorphan

Gene IDGCF_015669935#I4V68_RS02810Stable P2CS identifier used across views.

GenomeGCF_015669935Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Roseburia

Selected clusterRROC_0035306Run 7 · 3 sequences · id 100% · cov 80%

External referencesWP_138345182.1 · MIST4 I4V68_RS02810RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

GGDEFResponse_regHD

Protein length657 aaLength used to scale native and Biotite-like views.

Annotated domains33 with usable coordinates.

Domain coverage382 / 657 aa (58.1%)Merged over positioned domains only.

Domain description1 GGDEF,1 Response_reg,1 HDSummary 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 aa657 aa

Domain-by-domain annotation3 items

1 GGDEF#1

141-284 aa · 144 aa · 21.9% of protein

Raw tokenGGDEF:141:7.71e-38:284:156:160

2 Response_reg#2

311-423 aa · 113 aa · 17.2% of protein

Raw tokenResponse_reg:311:1.71e-25:423:114:111

3 HD#3

480-604 aa · 125 aa · 19.0% of protein

Raw tokenHD:480:0.0000000000000199:604:125:110

Raw architecture: GGDEF:141:7.71e-38:284:156:160#Response_reg:311:1.71e-25:423:114:111#HD:480:0.0000000000000199:604:125:110
Domain description: 1 GGDEF,1 Response_reg,1 HD
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_015669935::NZ_JADPAX010000004.1::G00048

Group size11 locus tag listed below.

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

Context span80544-82517Genomic interval covered by the local TCS group.

Identifiers

RefSeq proteinWP_138345182.1

Context group IDGCF_015669935::NZ_JADPAX010000004.1::G00048

Context members

I4V68_RS02810

Partner locus tags

I4V68_RS02810

Partner protein IDs

WP_138345182.1

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_138345182.1.

Genomic coordinates

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

Current locus tagI4V68_RS02810Primary locus identifier stored in the genes table.

Old locus tagUnavailableNo previous locus tag available for this gene.

Contig / repliconNZ_JADPAX010000004.1Sequence record reported by the local genomic context database.

Genomic interval80 544-82 517 nt1 974 nt · Reverse (-)

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

Local TCS group span80 544-82 517 ntGCF_015669935::NZ_JADPAX010000004.1::G00048

Quick actions

Open genome Search genes in genome

Local neighborhood

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

GCF_015669935::NZ_JADPAX010000004.1::G00048

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_JADPAX010000004.1All displayed genes belong to this local TCS context.

Neighborhood span80 544-82 517 nt1 974 nt

Members11 current focus gene

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

80 544 nt82 517 nt

+-I4V68_RS02810

Neighborhood gene cards

1 gene in the current local neighborhood.

I4V68_RS02810GCF_015669935#I4V68_RS02810

RRRpfGCurrent focus

80 544-82 517 nt · Reverse (-)

RefSeq WP_138345182.1

Open current gene

Clusters

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

Available memberships1 cluster

RROC_0035306RR

Run 73 sequencesid 100%cov 80%

PFAM GGDEF + Response_reg + HD_5

Representative GCF_005845255#FGQ84_RS02790

Selected clusterRROC_0035306Run 7 · RR · 3 sequences

Representative sequenceGCF_005845255#FGQ84_RS02790Use this link to inspect the representative gene detail.

PFAM architectureGGDEF + Response_reg + HD_53 domains in the representative PFAM annotation.

Open in cluster search Open representative gene

PFAM architecture for RROC_0035306

Simplified PFAM architecture for RROC_0035306

PFAM domain coverage: 406 / 657 aa (61.8%)

1 aa657 aa

GGDEFResponse_regHD_5

Simplified architecture: GGDEF + Response_reg + HD_5
Raw architecture: GGDEF[140-283] | Response_reg[311-423] | HD_5[475-623]
Domain count: 3
Matched identifier: RROC_0035306
Positioned domains: GGDEF 140-283 ; GGDEF 140-283 ; Response_reg 311-423 ; Response_reg 311-423 ; HD_5 475-623 ; HD_5 475-623

Cluster members and taxonomy

Representative gene: GCF_005845255#FGQ84_RS02790

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

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 301 302 · GCF_015669935

AssemblyASM1566993v1 · Scaffoldhaploid

Genome composition3 630 746 bp · 43,0% GCRoseburia faecis

Signal transduction countsGenes 109 · HK 47 · RR 60CheA 1 · PP 2

Ranked taxonomy7 ranked levels available

SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusRoseburia

Lineage path7 lineage nodes

1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Roseburia

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

Related genes

Preview from the same derived genome key