Gene detail

FGQ84_RS02025

Response regulator, unclassified

Roseburia hominis · GCF_005845255

Open genome Open selected cluster RefSeq

ClassRRTypeunclassifiedLength534 aaTM0ValidatedNoCompleteYesContextpaired

Gene IDGCF_005845255#FGQ84_RS02025Stable P2CS identifier used across views.

GenomeGCF_005845255Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Roseburia

Selected clusterRROC_0103813Run 7 · 2 sequences · id 100% · cov 80% · representative

External referencesWP_022045920.1 · MIST4 FGQ84_RS02025RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

Response_regHTH_AraC

Protein length534 aaLength used to scale native and Biotite-like views.

Annotated domains33 with usable coordinates.

Domain coverage187 / 534 aa (35.0%)Merged over positioned domains only.

Domain description1 Response_reg,2 HTH_AraCSummary 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 FGQ84_RS02025

Domain-by-domain annotation3 items

1 Response_reg#1

5-117 aa · 113 aa · 21.2% of protein

Raw tokenResponse_reg:5:1.14e-25:117:113:111

2 HTH_AraC#2

435-477 aa · 43 aa · 8.1% of protein

Raw tokenHTH_AraC:435:0.00000194:477:43:42

3 HTH_AraC#3

497-527 aa · 31 aa · 5.8% of protein

Raw tokenHTH_AraC:497:0.0000000292:527:31:42

Raw architecture: Response_reg:5:1.14e-25:117:113:111#HTH_AraC:435:0.00000194:477:43:42#HTH_AraC:497:0.0000000292:527:31:42
Domain description: 1 Response_reg,2 HTH_AraC
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_005845255::NZ_SPHF01000003.1::G00035

Group size22 locus tags listed below.

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

Context span60448-63838Genomic interval covered by the local TCS group.

Identifiers

RefSeq proteinWP_022045920.1

Context group IDGCF_005845255::NZ_SPHF01000003.1::G00035

Context members

FGQ84_RS02020FGQ84_RS02025

Partner locus tags

FGQ84_RS02020FGQ84_RS02025

Partner protein IDs

WP_022045921.1 WP_022045920.1

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_022045920.1.

Genomic coordinates

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

Current locus tagFGQ84_RS02025Primary locus identifier stored in the genes table.

Old locus tagUnavailableNo previous locus tag available for this gene.

Contig / repliconNZ_SPHF01000003.1Sequence record reported by the local genomic context database.

Genomic interval62 234-63 838 nt1 605 nt · Reverse (-)

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

Local TCS group span60 448-63 838 ntGCF_005845255::NZ_SPHF01000003.1::G00035

Quick actions

Open genome Search genes in genome

Local neighborhood

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

GCF_005845255::NZ_SPHF01000003.1::G00035

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_SPHF01000003.1All displayed genes belong to this local TCS context.

Neighborhood span60 448-63 838 nt3 391 nt

Members21 current focus gene

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

60 448 nt63 838 nt

+-FGQ84_RS02020 FGQ84_RS02025

Neighborhood gene cards

2 genes in the current local neighborhood.

FGQ84_RS02020GCF_005845255#FGQ84_RS02020

HKClassic

60 448-62 253 nt · Reverse (-)

RefSeq WP_022045921.1

Open gene

FGQ84_RS02025GCF_005845255#FGQ84_RS02025

RRunclassifiedCurrent focus

62 234-63 838 nt · Reverse (-)

RefSeq WP_022045920.1

Open current gene

Clusters

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

Available memberships1 cluster

RROC_0103813RR

Run 72 sequencesid 100%cov 80%

PFAM Response_reg + GGDEF_2 + HTH_18

Current gene is the representative sequence.

Selected clusterRROC_0103813Run 7 · RR · 2 sequences

Representative sequenceGCF_005845255#FGQ84_RS02025The current gene is the representative for this cluster.

PFAM architectureResponse_reg + GGDEF_2 + HTH_183 domains in the representative PFAM annotation.

Open in cluster search

PFAM architecture for RROC_0103813

Simplified PFAM architecture for RROC_0103813

PFAM domain coverage: 322 / 534 aa (60.3%)

1 aa534 aa

Response_regGGDEF_2HTH_18

Simplified architecture: Response_reg + GGDEF_2 + HTH_18
Raw architecture: Response_reg[5-115] | GGDEF_2[158-289] | HTH_18[449-527]
Domain count: 3
Matched identifier: RROC_0103813
Positioned domains: Response_reg 5-115 ; Response_reg 5-115 ; GGDEF_2 158-289 ; GGDEF_2 158-289 ; HTH_18 449-527 ; HTH_18 449-527

Cluster members and taxonomy

Representative gene: GCF_005845255#FGQ84_RS02025

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

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 301 301 · GCF_005845255

AssemblyASM584525v1 · Scaffoldhaploid

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

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