Select genomic region:
Overview
1.1
1.2
2.1
12.1
16.1

### Identified primary metabolite regions

c00001_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_1)

Region | Type | Class | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | --- | ---
Region 1.1 | Glycine_cleavage | Other | 421,887 | 446,365 | Glycine cleavage C. sticklandii | GLY | 60%
Region 1.2 | Pyruvate2acetate-formate | SCFA | 845,983 | 869,046 | Pyruvate to acetate and formate C. acetobutylicum | PFL_acetate | 100%

c00002_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_2)

Region | Type | Class | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | --- | ---
Region 2.1 | Fumarate2succinate | SCFA | 41,756 | 55,750 | Fumarate to succinate B. thetaiotaomicron | SUC | 66%

c00012_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_13)

Region | Type | Class | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | --- | ---
Region 12.1 | PFOR_II_pathway | SCFA | 238,375 | 261,953 | PFOR II pathway B. thetaiotaomicron | PFORII | 100%

c00016_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_17)

Region | Type | Class | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | --- | ---
Region 16.1 | TPP_fatty_acids,succinate2propionate | SCFA | 24,239 | 59,914 | Succinate to propionate A. sp. KLE1797 | SUC | 100%

Region | Type | Class | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | --- | ---
Region 1.1 | Glycine_cleavage | Other | 421,887 | 446,365 | Glycine cleavage C. sticklandii | GLY | 60%
Region 1.2 | Pyruvate2acetate-formate | SCFA | 845,983 | 869,046 | Pyruvate to acetate and formate C. acetobutylicum | PFL_acetate | 100%
Region 2.1 | Fumarate2succinate | SCFA | 41,756 | 55,750 | Fumarate to succinate B. thetaiotaomicron | SUC | 66%
Region 12.1 | PFOR_II_pathway | SCFA | 238,375 | 261,953 | PFOR II pathway B. thetaiotaomicron | PFORII | 100%
Region 16.1 | TPP_fatty_acids,succinate2propionate | SCFA | 24,239 | 59,914 | Succinate to propionate A. sp. KLE1797 | SUC | 100%

No primary metabolite regions were found in these records:
  c00003_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_3)
  c00004_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_4)
  c00005_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_5)
  c00006_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_6)
  c00007_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_7)
  c00008_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_8)
  c00009_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_9)
  c00010_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_11)
  c00011_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_12)
  c00013_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_14)
  c00014_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_15)
  c00015_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_16)
  c00017_gnlPro.. (original name was: gnl|Prokka|OJIKAFPI_18)

Compact view
c00001_gnlPro.. - Region 1 - Glycine_cleavage
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
Download region GenBank file
Location: 421,887 - 446,365 nt. (total: 24,479 nt) Show pHMM detection rules used
Glycine_cleavage: (minimum(2, [Aminotran_5, GCV_H, GCV_T, GDC-P, SoxG]) and GCV_H and GCV_T_C)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
resistance genes
encapsulation genes
electron transport genes
other genes
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
KnownClusterBlast
Similar known gene clusters
Shows clusters from the gutSMASH KnownClusterBlast database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Click on reference genes to show details of similarities to genes within the current region.
c00001_gnlPro.. - Region 2 - Pyruvate2acetate-formate
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
Download region GenBank file
Location: 845,983 - 869,046 nt. (total: 23,064 nt) Show pHMM detection rules used
Pyruvate2acetate-formate: ((PFL_acetate1 or PFL_acetate2) and Radical_SAM)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
resistance genes
encapsulation genes
electron transport genes
other genes
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
KnownClusterBlast
Similar known gene clusters
Shows clusters from the gutSMASH KnownClusterBlast database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Click on reference genes to show details of similarities to genes within the current region.
c00002_gnlPro.. - Region 1 - Fumarate2succinate
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
Download region GenBank file
Location: 41,756 - 55,750 nt. (total: 13,995 nt) Show pHMM detection rules used
Region on contig edge.
Fumarate2succinate: (Succ_DH_flav_C and FAD_binding_2 and (Fer2_3 or Fer4_7 or SucD_FumR))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
resistance genes
encapsulation genes
electron transport genes
other genes
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
KnownClusterBlast
Similar known gene clusters
Shows clusters from the gutSMASH KnownClusterBlast database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Click on reference genes to show details of similarities to genes within the current region.
c00012_gnlPro.. - Region 1 - PFOR_II_pathway
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
Download region GenBank file
Location: 238,375 - 261,953 nt. (total: 23,579 nt) Show pHMM detection rules used
PFOR_II_pathway: cds(POR and POR_N and PFOR_II and EKR and Fer4_16 and TPP_enzyme_C)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
resistance genes
encapsulation genes
electron transport genes
other genes
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
KnownClusterBlast
Similar known gene clusters
Shows clusters from the gutSMASH KnownClusterBlast database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Click on reference genes to show details of similarities to genes within the current region.
c00016_gnlPro.. - Region 1 - TPP_fatty_acids,succinate2propionate
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
Download region GenBank file
Location: 24,239 - 59,914 nt. (total: 35,676 nt) Show pHMM detection rules used
TPP_fatty_acids: (TPP_enzyme_C and (minimum(2, [ACD1_car, ACP_syn_III_C, AcetylCoA_hyd_C, AcetylCoA_hydro, Acyl-CoA_dh_1, Acyl-CoA_dh_2, Butyrate_kinase, CT_Propionyl_CoA1, CT_Propionyl_CoA2, CT_Propionyl_CoA3, Carboxyl_trans, CoA_trans, CoA_trans_230_acto, CoA_trans_2_CAF, CoA_trans_6_Glutaconate, E1_dh, ECH_1, ECH_2, HBT, HBT_2, HCDH, HpaB, Ketoacyl-synt_C, Thiolase_C, Thiolase_N, adh_short, adh_short_C2]) or FA_synthesis) and not (PFL-like or PFL_6_pcresol or PFL_9_tma or Gly_radical or Gly_430_pcre or PFL_acetate1 or PFL_acetate2 or Gly_radical_scatole or PFL_proline or PFL_toluene) and not (POR or POR_N))
succinate2propionate: (minimum(4, [AcetylCoA_hyd_C, AcetylCoA_hydro, B12-binding, Biotin_lipoyl, Glyoxalase_4, HMGL-like, MM_CoA_mutase, MeaB, OAD_beta, OAD_gamma, PYC_OADA]) and minimum(1, [CT_Btheta, CT_Propionyl_CoA1, CT_Propionyl_CoA2, CT_Propionyl_CoA3, CT_Vparvula]) and not Cytidylate_kin)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
resistance genes
encapsulation genes
electron transport genes
other genes
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
KnownClusterBlast
Similar known gene clusters
Shows clusters from the gutSMASH KnownClusterBlast database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Click on reference genes to show details of similarities to genes within the current region.