Gene detail

DXD21_RS11125

Response regulator, unclassified

Blautia sp. TF12-12AT · GCF_003481205

Open genome Open selected cluster RefSeq

ClassRRTypeunclassifiedLength543 aaTM0ValidatedNoCompleteYesContextpaired

Gene IDGCF_003481205#DXD21_RS11125Stable P2CS identifier used across views.

GenomeGCF_003481205Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Blautia

Selected clusterRROC_0083996Run 7 · 1 sequences · id 100% · cov 80% · representative

External referencesWP_330427874.1 · MIST4 DXD21_RS11125RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

Response_regHTH_AraC

Protein length543 aaLength used to scale native and Biotite-like views.

Annotated domains22 with usable coordinates.

Domain coverage143 / 543 aa (26.3%)Merged over positioned domains only.

Domain description1 Response_reg,1 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

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

1 aa543 aa

Domain-by-domain annotation2 items

1 Response_reg#1

6-114 aa · 109 aa · 20.1% of protein

Raw tokenResponse_reg:6:6.28e-26:114:109:111

2 HTH_AraC#2

446-479 aa · 34 aa · 6.3% of protein

Raw tokenHTH_AraC:446:0.00000000546:479:34:42

Raw architecture: Response_reg:6:6.28e-26:114:109:111#HTH_AraC:446:0.00000000546:479:34:42
Domain description: 1 Response_reg,1 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_003481205::NZ_QUKG01000015.1::G00010

Group size22 locus tags listed below.

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

Context span18174-21630Genomic interval covered by the local TCS group.

Identifiers

Old locus tagDXD21_11140RefSeq proteinWP_330427874.1

Context group IDGCF_003481205::NZ_QUKG01000015.1::G00010

Context members

DXD21_RS11125DXD21_RS11130

Partner locus tags

DXD21_RS11125DXD21_RS11130

Partner old locus tags

DXD21_11140DXD21_11145

Partner protein IDs

WP_330427874.1 WP_118666915.1

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_330427874.1.

Genomic coordinates

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

Current locus tagDXD21_RS11125Primary locus identifier stored in the genes table.

Old locus tagDXD21_11140Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_QUKG01000015.1Sequence record reported by the local genomic context database.

Genomic interval18 174-19 805 nt1 632 nt · Forward (+)

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

Local TCS group span18 174-21 630 ntGCF_003481205::NZ_QUKG01000015.1::G00010

Quick actions

Open genome Search genes in genome

Local neighborhood

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

GCF_003481205::NZ_QUKG01000015.1::G00010

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_QUKG01000015.1All displayed genes belong to this local TCS context.

Neighborhood span18 174-21 630 nt3 457 nt

Members21 current focus gene

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

18 174 nt21 630 nt

+-DXD21_RS11125 DXD21_RS11130

Neighborhood gene cards

2 genes in the current local neighborhood.

DXD21_RS11125GCF_003481205#DXD21_RS11125

RRunclassifiedCurrent focus

18 174-19 805 nt · Forward (+)

Old locus DXD21_11140RefSeq WP_330427874.1

Open current gene

DXD21_RS11130GCF_003481205#DXD21_RS11130

HKClassic

19 795-21 630 nt · Forward (+)

Old locus DXD21_11145RefSeq WP_118666915.1

Open gene

Clusters

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

Available memberships1 cluster

RROC_0083996RR

Run 71 sequencesid 100%cov 80%

PFAM Response_reg + GGDEF_2 + HTH_18

Current gene is the representative sequence.

Selected clusterRROC_0083996Run 7 · RR · 1 sequences

Representative sequenceGCF_003481205#DXD21_RS11125The 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_0083996

Simplified PFAM architecture for RROC_0083996

PFAM domain coverage: 305 / 543 aa (56.2%)

1 aa543 aa

Response_regGGDEF_2HTH_18

Simplified architecture: Response_reg + GGDEF_2 + HTH_18
Raw architecture: Response_reg[6-117] | GGDEF_2[166-291] | HTH_18[452-518]
Domain count: 3
Matched identifier: RROC_0083996
Positioned domains: Response_reg 6-117 ; Response_reg 6-117 ; GGDEF_2 166-291 ; GGDEF_2 166-291 ; HTH_18 452-518 ; HTH_18 452-518

Cluster members and taxonomy

Representative gene: GCF_003481205#DXD21_RS11125

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

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 2 292 988 · GCF_003481205

AssemblyASM348120v1 · Contighaploid

Genome composition3 327 287 bp · 47,5% GCBlautia sp. TF12-12AT

Signal transduction countsGenes 78 · HK 38 · RR 37CheA 0 · PP 3

Ranked taxonomy7 ranked levels available

SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusBlautia

Lineage path7 lineage nodes

1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Blautia

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

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