Assembly
ASM5538378v1
BioProject PRJDB20346 · BioSample SAMD00887283
GENOME-RESOLVED EVIDENCE
GCA_055383785.1
Sporomusa intestinalis · Complete Genome
View versioned NCBI assembly →
Quality metadata
Genome size 5535802 bp · GC 51.000%
Completeness —% · contamination —%
Pathway marker completeness
| Module | Markers | Fraction | Call |
|---|---|---|---|
| bcd_etf_module | 3/3 | 1.000 | Complete marker set |
| ethanol_entry_support | 0/1 | 0.000 | Partial/absent |
| fatty_acid_biosynthesis_core | 5/8 | 0.625 | Partial/absent |
| lactate_entry_support | 2/2 | 1.000 | Complete marker set |
| reverse_beta_oxidation_core | 3/4 | 0.750 | Partial/absent |
| rnf_complex | 6/6 | 1.000 | Complete marker set |
Detected markers
| Marker | Function | Copies |
|---|
Profile-HMM marker predictions
Approved candidates and review records are genomic predictions, not evidence of expression or MCFA production. Excluded matches remain visible for audit.
| Marker / protein | Confidence | Review status | Score / coverage | Supporting evidence |
|---|---|---|---|---|
| accBWP_464767573.1 · acetyl-CoA carboxylase biotin carboxyl carrier protein | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 132.900 / 0.98100 | Annotation: gene_symbol |
| accCWP_464767570.1 · acetyl-CoA carboxylase biotin carboxylase subunit | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 665.700 / 0.99100 | Annotation: gene_symbol |
| bcdWP_464768435.1 · acyl-CoA dehydrogenase | Medium | Approved candidateContext-supported Bcd candidate: calibrated profile hit co-localized with independently approved EtfA and EtfB within six CDS positions. | 590.300 / 0.99700 | Annotation: bcd_etfAB_neighborhood |
| bcdWP_464768809.1 · acyl-CoA dehydrogenase | Medium | Approved candidateContext-supported Bcd candidate: calibrated profile hit co-localized with independently approved EtfA and EtfB within six CDS positions. | 572.100 / 1.00000 | Annotation: bcd_etfAB_neighborhood |
| bcdWP_464766309.1 · acyl-CoA dehydrogenase family protein | Medium | Approved candidateContext-supported Bcd candidate: calibrated profile hit co-localized with independently approved EtfA and EtfB within six CDS positions. | 469.900 / 0.99700 | Annotation: bcd_etfAB_neighborhood |
| bcdWP_464768781.1 · acyl-CoA dehydrogenase family protein | Medium | Approved candidateContext-supported Bcd candidate: calibrated profile hit co-localized with independently approved EtfA and EtfB within six CDS positions. | 456.500 / 0.99700 | Annotation: bcd_etfAB_neighborhood |
| coatWP_464766196.1 · 3-oxoacid CoA-transferase subunit B | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: specific_product_name | 267.400 / 1.00000 | Bridge orthogroup OG0004934 |
| coatWP_464766520.1 · 3-oxoacid CoA-transferase subunit B | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: specific_product_name | 263.200 / 1.00000 | Bridge orthogroup OG0004934 |
| coatWP_464767748.1 · 3-oxoacid CoA-transferase subunit B | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: specific_product_name | 255.600 / 0.99500 | Bridge orthogroup OG0004934 |
| coatWP_464766521.1 · CoA transferase subunit A | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: specific_product_name | 127.900 / 0.70500 | Bridge orthogroup OG0000263 |
| coatWP_464767747.1 · acetate CoA-transferase subunit alpha | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: specific_product_name | 124.600 / 0.71000 | Bridge orthogroup OG0000263 |
| coatWP_464766197.1 · CoA transferase subunit A | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: specific_product_name | 114.000 / 0.76500 | Bridge orthogroup OG0000263 |
| etfAWP_464768433.1 · FAD-binding protein | High | Approved candidatestrong profile and bridge orthogroup support | 458.400 / 0.97900 | Bridge orthogroup OG0001385 |
| etfAWP_464766307.1 · electron transfer flavoprotein subunit alpha/FixB family protein | High | Approved candidatestrong profile and bridge orthogroup support | 454.000 / 0.99100 | Bridge orthogroup OG0001385 |
| etfAWP_464768811.1 · FAD-binding protein | High | Approved candidatestrong profile and bridge orthogroup support | 446.700 / 0.99700 | Bridge orthogroup OG0001385 |
| etfAWP_464766023.1 · FAD-binding protein | High | Approved candidatestrong profile and bridge orthogroup support | 434.700 / 0.98500 | Bridge orthogroup OG0001385 |
| etfAWP_464768783.1 · FAD-binding protein | High | Approved candidatestrong profile and bridge orthogroup support | 431.100 / 0.99100 | Bridge orthogroup OG0001385 |
| etfBWP_464766024.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 388.600 / 1.00000 | Bridge orthogroup OG0001139 |
| etfBWP_464768434.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 386.200 / 1.00000 | Bridge orthogroup OG0001139 |
| etfBWP_464768810.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 377.700 / 1.00000 | Bridge orthogroup OG0001139 |
| etfBWP_464768782.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 374.100 / 1.00000 | Bridge orthogroup OG0001139 |
| etfBWP_464766308.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 373.200 / 1.00000 | Bridge orthogroup OG0001139 |
| fabDWP_464770189.1 · ACP S-malonyltransferase | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 374.300 / 0.98700 | Annotation: gene_symbol |
| fabFWP_464770192.1 · beta-ketoacyl-ACP synthase II | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 647.800 / 0.99300 | Annotation: gene_symbol |
| fabGWP_464770190.1 · 3-oxoacyl-[acyl-carrier-protein] reductase | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 279.000 / 0.99600 | Bridge orthogroup OG0000008 |
| fabZWP_464767281.1 · 3-hydroxyacyl-ACP dehydratase FabZ | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 158.700 / 0.76000 | Bridge orthogroup OG0000074 |
| hbdWP_464766526.1 · 3-hydroxyacyl-CoA dehydrogenase family protein | High | Approved candidatestrong profile and bridge orthogroup support | 255.600 / 0.98900 | Bridge orthogroup OG0000153 |
| hbdWP_464766203.1 · 3-hydroxyacyl-CoA dehydrogenase family protein | High | Approved candidatestrong profile and bridge orthogroup support | 220.900 / 0.98900 | Bridge orthogroup OG0000153 |
| lctPWP_464768963.1 · L-lactate permease | High | Approved candidatestrong profile and bridge orthogroup support | 445.500 / 0.99200 | Bridge orthogroup OG0000731 |
| lctPWP_464769848.1 · L-lactate permease | High | Approved candidatestrong profile and bridge orthogroup support | 429.000 / 0.99000 | Bridge orthogroup OG0000731 |
| ldhWP_464766737.1 · L-lactate dehydrogenase | High | Approved candidatestrong profile and bridge orthogroup support | 323.200 / 0.98700 | Bridge orthogroup OG0001800 |
| rnfAWP_464769920.1 · electron transport complex protein RnfA | High | Approved candidatestrong profile and bridge orthogroup support | 266.200 / 0.99500 | Bridge orthogroup OG0001169 |
| rnfBWP_464769921.1 · RnfABCDGE type electron transport complex subunit B | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 336.400 / 0.93200 | Bridge orthogroup OG0001404 |
| rnfCWP_464769916.1 · electron transport complex subunit RsxC | High | Approved candidatestrong profile and bridge orthogroup support | 417.000 / 0.74800 | Bridge orthogroup OG0001114 |
| rnfDWP_464769917.1 · RnfABCDGE type electron transport complex subunit D | High | Approved candidatestrong profile and bridge orthogroup support | 496.100 / 0.95600 | Bridge orthogroup OG0001182 |
| rnfEWP_464769919.1 · electron transport complex subunit RsxE | High | Approved candidatestrong profile and bridge orthogroup support | 275.500 / 0.96200 | Bridge orthogroup OG0001153 |
| rnfGWP_464769918.1 · RnfABCDGE type electron transport complex subunit G | High | Approved candidatestrong profile and bridge orthogroup support | 149.500 / 0.90700 | Bridge orthogroup OG0001292 |
| thlWP_464766200.1 · thiolase family protein | High | Approved candidatestrong profile and bridge orthogroup support | 492.300 / 0.99500 | Bridge orthogroup OG0000010 |
| thlWP_464766833.1 · acetyl-CoA C-acetyltransferase | High | Approved candidatestrong profile and bridge orthogroup support | 472.400 / 0.99200 | Bridge orthogroup OG0000010 |
| thlWP_464769157.1 · thiolase family protein | High | Approved candidatestrong profile and bridge orthogroup support | 448.500 / 0.99200 | Bridge orthogroup OG0000010 |
| accCWP_464769575.1 · pyruvate carboxylase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 517.300 / 0.98400 | Profile only |
| bcdWP_464766618.1 · acyl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 579.700 / 1.00000 | Profile only |
| bcdWP_464766832.1 · acyl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 554.500 / 1.00000 | Profile only |
| bcdWP_464765892.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 491.900 / 0.99700 | Profile only |
| bcdWP_464769082.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 487.600 / 0.99500 | Profile only |
| bcdWP_464768929.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 420.600 / 0.99500 | Profile only |
| bcdWP_464766317.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 397.100 / 0.99700 | Profile only |
| bcdWP_464768774.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 396.600 / 0.99500 | Profile only |
| bcdWP_464768930.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 389.800 / 0.96000 | Profile only |
| bcdWP_464768949.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 315.400 / 0.98200 | Profile only |
| crtWP_464766537.1 · short-chain-enoyl-CoA hydratase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 376.300 / 0.99600 | Annotation: specific_product_name |
| crtWP_464768813.1 · short-chain-enoyl-CoA hydratase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 371.500 / 0.98800 | Annotation: specific_product_name |
| crtWP_464769078.1 · enoyl-CoA hydratase-related protein | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 333.800 / 0.99200 | Annotation: specific_product_name |
| crtWP_464769158.1 · enoyl-CoA hydratase/isomerase family protein | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 257.800 / 0.98500 | Annotation: specific_product_name |
| crtWP_464768779.1 · enoyl-CoA hydratase/isomerase family protein | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 249.400 / 1.00000 | Annotation: specific_product_name |
| crtWP_464769172.1 · enoyl-CoA hydratase/isomerase family protein | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 248.300 / 0.99200 | Annotation: specific_product_name |
| crtWP_464770575.1 · enoyl-CoA hydratase/isomerase family protein | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 215.000 / 0.98500 | Annotation: specific_product_name |
| crtWP_464769511.1 · enoyl-CoA hydratase/isomerase family protein | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 161.400 / 0.88000 | Annotation: specific_product_name |
| crtWP_464766960.1 · 1,4-dihydroxy-2-naphthoyl-CoA synthase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 149.700 / 0.98800 | Profile only |
| etfAWP_464769084.1 · electron transfer flavoprotein subunit alpha/FixB family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 221.100 / 0.93200 | Profile only |
| etfAWP_464768932.1 · electron transfer flavoprotein subunit alpha/FixB family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 202.600 / 0.92000 | Profile only |
| etfBWP_464769083.1 · electron transfer flavoprotein subunit beta/FixA family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 182.000 / 0.90400 | Profile only |
| fabGWP_464768439.1 · beta-ketoacyl-ACP reductase | High | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 245.200 / 0.98400 | Bridge orthogroup OG0000008 |
| fabGWP_464766535.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 224.900 / 0.98800 | Profile only |
| fabGWP_464766312.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 202.200 / 0.97200 | Profile only |
| fabGWP_464766518.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 198.000 / 0.97600 | Profile only |
| fabGWP_464766201.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 194.000 / 0.98000 | Profile only |
| fabGWP_464769162.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 187.000 / 0.98800 | Profile only |
| fabGWP_464768853.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 186.200 / 0.98800 | Profile only |
| fabGWP_464769310.1 · 3-ketoacyl-ACP reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 180.200 / 0.99200 | Profile only |
| fabGWP_464768831.1 · SDR family NAD(P)-dependent oxidoreductase | High | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 178.100 / 0.98400 | Bridge orthogroup OG0000008 |
| fabGWP_464769774.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 177.100 / 0.97600 | Profile only |
| fabGWP_464767026.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 152.400 / 0.97600 | Profile only |
| fabGWP_464766388.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 127.300 / 0.79800 | Profile only |
| fabHWP_464770188.1 · beta-ketoacyl-ACP synthase III | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 348.600 / 0.99700 | Profile only |
| fabHWP_464768297.1 · beta-ketoacyl-ACP synthase III | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 343.200 / 0.99100 | Profile only |
| fabHWP_464769150.1 · beta-ketoacyl-ACP synthase III | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 339.300 / 0.99400 | Profile only |
| fabKWP_464770614.1 · DUF561 domain-containing protein | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 434.900 / 0.92700 | Profile only |
| fabKWP_464768568.1 · nitronate monooxygenase | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 412.400 / 0.98400 | Profile only |
| fabKWP_464770574.1 · NAD(P)H-dependent flavin oxidoreductase | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 318.200 / 0.98400 | Profile only |
| fabKWP_464770191.1 · NAD(P)H-dependent flavin oxidoreductase | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 266.300 / 0.94300 | Profile only |
| fabLWP_464766312.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 220.400 / 0.97600 | Profile only |
| fabLWP_464766535.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 201.500 / 0.98800 | Profile only |
| fabLWP_464768439.1 · beta-ketoacyl-ACP reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 193.500 / 0.98800 | Profile only |
| fabLWP_464766518.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 191.300 / 0.97600 | Profile only |
| fabLWP_464769774.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 185.300 / 0.98800 | Profile only |
| fabLWP_464768831.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 183.200 / 0.98000 | Profile only |
| fabLWP_464769310.1 · 3-ketoacyl-ACP reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 182.300 / 0.98000 | Profile only |
| fabLWP_464768853.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 170.700 / 0.97200 | Profile only |
| fabLWP_464766201.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 165.700 / 0.98800 | Profile only |
| fabLWP_464769162.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 163.700 / 0.98400 | Profile only |
| fabLWP_464767026.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 130.800 / 0.97600 | Profile only |
| hbdWP_464768431.1 · 3-hydroxybutyryl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 401.500 / 0.99600 | Profile only |
| hbdWP_464768812.1 · 3-hydroxybutyryl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 389.400 / 0.99600 | Profile only |
| hbdWP_464766538.1 · 3-hydroxybutyryl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 383.800 / 0.98900 | Profile only |
| hbdWP_464769160.1 · 3-hydroxyacyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 369.300 / 0.99300 | Profile only |
| hbdWP_464766834.1 · 3-hydroxyacyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 304.100 / 0.99300 | Profile only |
| hbdWP_464768947.1 · 3-hydroxyacyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 259.600 / 0.98900 | Profile only |
| ldhWP_464768155.1 · malate dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 251.900 / 0.97800 | Profile only |
| rnfCWP_464767593.1 · 4Fe-4S dicluster domain-containing protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 496.100 / 0.97700 | Profile only |
| rnfCWP_464769368.1 · SLBB domain-containing protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 486.200 / 0.97300 | Profile only |
| thlWP_464768436.1 · acetyl-CoA C-acetyltransferase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 615.400 / 0.99700 | Profile only |
| thlWP_464766524.1 · acetyl-CoA C-acetyltransferase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 603.000 / 0.99700 | Profile only |
| thlWP_464767750.1 · acetyl-CoA C-acetyltransferase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 600.400 / 0.99700 | Profile only |
| thlWP_464768808.1 · acetyl-CoA C-acetyltransferase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 591.500 / 0.99700 | Profile only |
| thlWP_464766195.1 · acetyl-CoA C-acetyltransferase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 590.600 / 0.99700 | Profile only |
| thlWP_464768945.1 · thiolase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 435.000 / 0.99700 | Profile only |
| fabLWP_464770190.1 · 3-oxoacyl-[acyl-carrier-protein] reductase | Medium | RejectedSpecific CDD hits identify the sequence as FabG/3-oxoacyl-ACP reductase rather than FabL. | 218.100 / 0.97200 | Annotation: CDD_competing_FabG_signature |
Protein-level evidence
| Gene | Protein | Orthogroup | Coordinates | Annotation |
|---|
These are genomic annotation predictions. Experimental activity, expression and metabolite production require separate evidence.