Assembly
ASM80767v2
BioProject PRJNA270275 · BioSample SAMN03265381
GENOME-RESOLVED EVIDENCE
GCA_000807675.2
Eubacterium limosum · Complete Genome
View versioned NCBI assembly →
Quality metadata
Genome size 4422837 bp · GC 47.000%
Completeness —% · contamination —%
Pathway marker completeness
| Module | Markers | Fraction | Call |
|---|---|---|---|
| bcd_etf_module | 2/3 | 0.667 | Partial/absent |
| ethanol_entry_support | 0/1 | 0.000 | Partial/absent |
| fatty_acid_biosynthesis_core | 6/8 | 0.750 | Partial/absent |
| lactate_entry_support | 1/2 | 0.500 | Partial/absent |
| reverse_beta_oxidation_core | 1/4 | 0.250 | 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_038353933.1 · acetyl-CoA carboxylase biotin carboxyl carrier protein | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 142.500 / 0.98800 | Annotation: gene_symbol |
| accCWP_038353932.1 · acetyl-CoA carboxylase biotin carboxylase subunit | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 670.400 / 0.99100 | Annotation: gene_symbol |
| accDWP_038353931.1 · acetyl-CoA carboxylase, carboxyltransferase subunit beta | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 382.000 / 0.95900 | Bridge orthogroup OG0000844 |
| crtWP_038350952.1 · enoyl-CoA hydratase-related protein | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: specific_product_name | 333.300 / 0.97700 | Bridge orthogroup OG0002531 |
| etfAWP_038352355.1 · lactate dehydrogenase subunit LctC | High | Approved candidatestrong profile and bridge orthogroup support | 458.900 / 0.98500 | Bridge orthogroup OG0002903 |
| etfBWP_038352354.1 · lactate dehydrogenase subunit LctB | High | Approved candidatestrong profile and bridge orthogroup support | 331.300 / 1.00000 | Bridge orthogroup OG0002348 |
| etfBWP_038352172.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 233.600 / 0.96900 | Bridge orthogroup OG0002348 |
| fabDWP_038353926.1 · ACP S-malonyltransferase | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 323.000 / 0.97800 | Annotation: gene_symbol |
| fabFWP_038353924.1 · beta-ketoacyl-ACP synthase II | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 566.300 / 0.99300 | Annotation: gene_symbol |
| fabGWP_172611067.1 · 3-oxoacyl-[acyl-carrier-protein] reductase | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 256.700 / 0.97200 | Bridge orthogroup OG0000008 |
| fabZWP_038353923.1 · 3-hydroxyacyl-ACP dehydratase FabZ | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 156.900 / 0.75400 | Bridge orthogroup OG0000074 |
| lctPWP_038352356.1 · L-lactate permease | High | Approved candidatestrong profile and bridge orthogroup support | 770.200 / 0.99400 | Bridge orthogroup OG0000731 |
| rnfAWP_013380941.1 · electron transport complex subunit RsxA | High | Approved candidatestrong profile and bridge orthogroup support | 285.500 / 0.99500 | Bridge orthogroup OG0001169 |
| rnfBWP_052237108.1 · RnfABCDGE type electron transport complex subunit B | High | Approved candidatestrong profile and bridge orthogroup support | 327.100 / 0.93200 | Bridge orthogroup OG0001404 |
| rnfCWP_038351329.1 · electron transport complex subunit RsxC | High | Approved candidatestrong profile and bridge orthogroup support | 395.700 / 0.75300 | Bridge orthogroup OG0001114 |
| rnfDWP_038351330.1 · RnfABCDGE type electron transport complex subunit D | High | Approved candidatestrong profile and bridge orthogroup support | 388.000 / 0.93500 | Bridge orthogroup OG0001182 |
| rnfEWP_038351331.1 · electron transport complex subunit RsxE | High | Approved candidatestrong profile and bridge orthogroup support | 281.100 / 0.96200 | Bridge orthogroup OG0001153 |
| rnfGWP_052237107.1 · RnfABCDGE type electron transport complex subunit G | High | Approved candidatestrong profile and bridge orthogroup support | 183.900 / 0.93300 | Bridge orthogroup OG0001292 |
| fabGWP_038354045.1 · SDR family NAD(P)-dependent oxidoreductase | Low | Excluded: low confidenceprofile hit lacks strong score and bridge orthogroup support | 78.200 / 0.75000 | Profile only |
| accAWP_038353930.1 · acetyl-CoA carboxylase carboxyltransferase subunit alpha | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 368.600 / 0.97100 | Profile only |
| accCWP_038350825.1 · pyruvate carboxylase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 528.500 / 0.98700 | Profile only |
| bcdWP_013378878.1 · acyl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 635.800 / 1.00000 | Profile only |
| bcdWP_038351959.1 · acyl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 625.800 / 0.99200 | Profile only |
| bcdWP_081571245.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 576.700 / 0.99700 | Profile only |
| bcdWP_038353017.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 554.200 / 1.00000 | Profile only |
| crtWP_038353019.1 · enoyl-CoA hydratase-related protein | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 369.800 / 0.98800 | Annotation: specific_product_name |
| etfAWP_013378880.1 · electron transfer flavoprotein subunit alpha/FixB family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 449.400 / 0.98800 | Profile only |
| etfAWP_052237222.1 · electron transfer flavoprotein subunit alpha/FixB family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 227.800 / 0.95200 | Profile only |
| etfBWP_038350951.1 · electron transfer flavoprotein subunit beta/FixA family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 357.800 / 1.00000 | Profile only |
| etfBWP_038351909.1 · electron transfer flavoprotein subunit beta/FixA family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 286.000 / 0.98100 | Profile only |
| fabGWP_038351203.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 246.300 / 1.00000 | Profile only |
| fabGWP_081571095.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 221.900 / 0.98800 | Profile only |
| fabGWP_038353587.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 207.900 / 0.99200 | Profile only |
| fabGWP_081571056.1 · SDR family NAD(P)-dependent oxidoreductase | High | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 184.800 / 0.96000 | Bridge orthogroup OG0000008 |
| fabGWP_038351584.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 183.900 / 0.98400 | Profile only |
| fabGWP_038350732.1 · 7alpha-hydroxysteroid dehydrogenase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 176.400 / 0.98400 | Profile only |
| fabGWP_038350745.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 167.300 / 0.98000 | Profile only |
| fabGWP_038353714.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 96.000 / 0.82700 | Bridge orthogroup OG0000242 |
| fabHWP_038353929.1 · beta-ketoacyl-ACP synthase III | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 283.200 / 0.98200 | Profile only |
| fabKWP_038353928.1 · DUF561 domain-containing protein | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 440.400 / 0.96500 | Profile only |
| fabLWP_172611067.1 · 3-oxoacyl-[acyl-carrier-protein] reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 227.000 / 0.97600 | Profile only |
| fabLWP_081571095.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 202.400 / 0.99200 | Profile only |
| fabLWP_038351203.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 196.800 / 0.96800 | Profile only |
| fabLWP_038353587.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 193.700 / 0.99200 | Profile only |
| fabLWP_038351584.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 179.200 / 0.97600 | Profile only |
| fabLWP_038350732.1 · 7alpha-hydroxysteroid dehydrogenase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 161.400 / 0.98000 | Profile only |
| fabLWP_081571056.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 157.800 / 0.98000 | Profile only |
| fabLWP_038350745.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 154.700 / 0.97600 | Profile only |
| hbdWP_013378877.1 · 3-hydroxyacyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 390.400 / 0.98900 | Profile only |
| rnfCWP_013382320.1 · 4Fe-4S dicluster domain-containing protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 562.300 / 0.99300 | Profile only |
| thlWP_038350953.1 · acetyl-CoA C-acetyltransferase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 607.000 / 0.99200 | Profile only |
Protein-level evidence
| Gene | Protein | Orthogroup | Coordinates | Annotation |
|---|
These are genomic annotation predictions. Experimental activity, expression and metabolite production require separate evidence.