Help to interpret the results
Four outputs have been generated:
General: this tab contains the description, occurence in the database and other information related to the selected GI cluster GIC11
GIs list: lists the 4 occurences of the GI cluster within the database. The table reports information on each occurence.
Orthogroup list: lists the 77 orthogroups associated with the GI cluster
Profile: phylogenetic tree annotated with
- the presence of the GI cluster of interest within all the genomes of the database (first column)
- the size of the orthogroup(s) associated with the GI cluster in each genome.
Orthogroups are shown in red if they are found withinin the that particular GI cluster in a given genome , in green otherwise, i.e. if the orthogroup is present in the genome but not in that GI cluster.
Green homologs (same orthogroup) are not found inside the considered GI cluster.
Variations within orthogroups may be due to the clustering of multi domain proteins or because of erroneous homolog clustering or GI cluster prediction.
Description
| Cluster ID | GIC11 |
|---|---|
| Length | 41465 |
×
This plot shows the genomic regions of the selected GIs.
Genes in magenta are AMR genes, while purple correspond to VF genes.
Links are coloured wiht a scale of gray reflecting the sequence identity: dark gray for highly conserved, light grey for features with less identity. Click on the link to visualise the percentage of identity. Beginning and end of the regions are shown as dashed line if the region shows a complete circular contig, a double line if the start or end of the region matches the start or end of a linear contig and a single line otherwise.
Genes in magenta are AMR genes, while purple correspond to VF genes.
Links are coloured wiht a scale of gray reflecting the sequence identity: dark gray for highly conserved, light grey for features with less identity. Click on the link to visualise the percentage of identity. Beginning and end of the regions are shown as dashed line if the region shows a complete circular contig, a double line if the start or end of the region matches the start or end of a linear contig and a single line otherwise.
Genomic regions
| ID | Organism | Bioentry | Start | End | Length | |
|---|---|---|---|---|---|---|
| 4 | GI4 | Morganella morganii S4 | ZDB_522 | 1439 | 41383 | 39944 |
| 17 | GI17 | Morganella morganii S2 | ZDB_216 | 1566 | 42258 | 40692 |
| 60 | GI60 | Proteus mirabilis HI4320 | NC_010554 | 2782954 | 2829916 | 46962 |
| 74 | GI74 | Morganella morganii S5 | ZDB_681 | 228258 | 266523 | 38265 |
| Orthogroup | Products | Genes | |
|---|---|---|---|
| 4621 | group_4621 | - | hypothetical protein (1) |
| 2657 | group_2657 | traG (5) | Conjugal transfer protein TraG (5) conjugal transfer protein TraG N-terminal domain-containing protein (1) |
| 64 | group_64 | - | Integrase catalytic domain-containing protein (5) IS3 family transposase (2) Integrase core domain (5) IS481 family transposase (1) |
| 2644 | group_2644 | xerD (5) | Site-specific recombinase XerD (5) site-specific integrase (1) |
| 2645 | group_2645 | traI (5) | Helicase (5) TraI domain-containing protein (1) |
| 2646 | group_2646 | - | hypothetical protein (6) |
| 2647 | group_2647 | yubB (5) | YubB ferredoxin-like domain-containing protein (5) DUF1281 domain-containing protein (1) |
| 3672 | group_3672 | - | MFS transporter (4) |
| 2648 | group_2648 | ypjF (5) | Toxin YpjF (5) TA system toxin CbtA family protein (1) |
| 2649 | group_2649 | ardC (5) | Antirestriction protein ArdC (5) zincin-like metallopeptidase domain-containing protein (1) |
| 2650 | group_2650 | - | hypothetical protein (6) |
| 2651 | group_2651 | - | hypothetical protein (6) |
| 2652 | group_2652 | - | hypothetical protein (6) |
| 2653 | group_2653 | - | hypothetical protein (6) |
| 2654 | group_2654 | - | hypothetical protein (6) |
| 2655 | group_2655 | - | hypothetical protein (6) |
| 2656 | group_2656 | - | DUF3742 domain-containing protein (5) DUF3742 family protein (1) |
| 2658 | group_2658 | - | hypothetical protein (6) |
| 2659 | group_2659 | - | TIGR03756 family integrating conjugative element protein (6) |
| 2660 | group_2660 | - | TIGR03757 family integrating conjugative element protein (6) |
| 2661 | group_2661 | - | TIGR03751 family conjugal transfer lipoprotein (6) |
| 2662 | group_2662 | - | hypothetical protein (6) |
| 2663 | group_2663 | - | TIGR03749 family integrating conjugative element protein (6) |
| 2664 | group_2664 | - | TIGR03750 family conjugal transfer protein (6) |
| 2665 | group_2665 | - | TIGR03745 family integrating conjugative element membrane protein (6) |
| 2666 | group_2666 | - | Integrating conjugative element protein (5) TIGR03758 family integrating conjugative element protein (1) |
| 2667 | group_2667 | - | Integrative conjugative element protein, RAQPRD family (5) RAQPRD family integrative conjugative element protein (1) |
| 2668 | group_2668 | - | DUF2913 domain-containing protein (5) DUF2913 family protein (1) |
| 2669 | group_2669 | - | Integrating conjugative element membrane protein, PFL_4697 family (5) TIGR03747 family integrating conjugative element membrane protein (1) |
| 2670 | group_2670 | - | Integrating conjugative element protein (5) integrating conjugative element protein (1) |
| 2671 | group_2671 | - | Lytic transglycosylase (5) transglycosylase SLT domain-containing protein (1) |
| 2672 | group_2672 | - | Tat (Twin-arginine translocation) pathway signal sequence (5) hypothetical protein (1) |
| 2673 | group_2673 | cirA (3) | TonB-dependent receptor (3) Outer membrane receptor protein, Fe transport (3) |
| 114 | group_114 | - | integrating conjugative element protein (11) |
| 115 | group_115 | virB4 (5) | conjugative transfer ATPase (11) |
| 116 | group_116 | - | TIGR03752 family integrating conjugative element protein (11) |
| 117 | group_117 | - | DUF2895 domain-containing protein (5) TIGR03746 family integrating conjugative element protein (6) |
| 125 | group_125 | - | IS3 family transposase (6) Integrase core domain (5) |
| 151 | group_151 | tnp (10) | IS3 family ISPrre1 transposase ORF A (5) IS3 family transposase ORF A (5) |
| 3236 | group_3236 | - | hypothetical protein (5) |
| 3751 | group_3751 | - | hypothetical protein (2) |
| 168 | group_168 | taaP (6) aipA (1) |
trimeric autotransporter adhesin TaaP (6) YadA-like family protein (2) trimeric autotransporter adhesin AipA (1) |
| 172 | group_172 | ybjT (5) | DUF2867 domain-containing protein (7) SDR family oxidoreductase (1) NAD(P)H-binding protein (1) |
| 198 | group_198 | - | fimbrial protein (8) |
| 4326 | group_4326 | - | hypothetical protein (1) |
| 4338 | group_4338 | - | hypothetical protein (1) |
| 871 | group_871 | - | DUF4156 domain-containing protein (7) |
| 873 | group_873 | groL (7) | chaperonin GroEL (7) |
| 874 | group_874 | groES (5) | Co-chaperonin GroES (5) co-chaperone GroES (2) |
| 875 | group_875 | fxsA (5) | FxsA protein affecting phage T7 exclusion by the F plasmid, UPF0716 family (5) FxsA family protein (2) |
| 876 | group_876 | aspA (7) | aspartate ammonia-lyase (7) |
| 877 | group_877 | dcuA (5) | Anaerobic C4-dicarboxylate transporter (5) anaerobic C4-dicarboxylate transporter (2) |
| 878 | group_878 | - | transcriptional regulator (7) |
| 879 | group_879 | - | DUF459 domain-containing protein (5) SGNH/GDSL hydrolase family protein (1) hypothetical protein (1) |
| 880 | group_880 | - | Core-binding (CB) domain-containing protein (5) integrase domain-containing protein (2) |
| 881 | group_881 | - | Conjugal transfer protein (5) PilL N-terminal domain-containing protein (2) |
| 371 | group_371 | mdlB (5) | ABC-type multidrug transport system, ATPase and permease component (5) ABC transporter transmembrane domain-containing protein (1) type I secretion system permease/ATPase (1) ABC transporter ATP-binding protein (1) |
| 372 | group_372 | alpA (5) | DNA-binding transcriptional regulator AlpA (5) AlpA family transcriptional regulator (3) |
| 3510 | group_3510 | irpP (5) | IrpP (5) |
| 3511 | group_3511 | - | DUF2857 domain-containing protein (5) |
| 3512 | group_3512 | - | Integrase catalytic domain-containing protein (5) |
| 3513 | group_3513 | ardC (5) | Antirestriction protein ArdC (5) |
| 3514 | group_3514 | - | Antirestriction protein (5) |
| 2491 | group_2491 | - | Exported protein (5) TIGR03759 family integrating conjugative element protein (1) |
| 2489 | group_2489 | traD (6) | type IV conjugative transfer system coupling protein TraD (6) |
| 3020 | group_3020 | - | Class I SAM-dependent methyltransferase (5) class I SAM-dependent methyltransferase (1) |
| 3021 | group_3021 | tam (5) | Trans-aconitate methyltransferase (5) non-ribosomal peptide synthetase (1) |
| 3022 | group_3022 | pksD (5) | Acyl transferase domain in polyketide synthase (PKS) enzymes (5) type I polyketide synthase (1) |
| 3023 | group_3023 | pchG (5) | Oxidoreductase (NAD-binding), involved in siderophore biosynthesis (5) Gfo/Idh/MocA family oxidoreductase (1) |
| 3024 | group_3024 | grsT (5) | Surfactin synthase thioesterase subunit (5) thioesterase domain-containing protein (1) |
| 3025 | group_3025 | mdlB (5) | ABC-type multidrug transport system, ATPase and permease component (5) ABC transporter ATP-binding protein (1) |
| 3026 | group_3026 | sfp (4) | Phosphopantetheinyl transferase (4) 4'-phosphopantetheinyl transferase superfamily protein (2) |
| 3027 | group_3027 | - | IS110 family transposase (6) |
| 3028 | group_3028 | cirA (5) | Outer membrane receptor protein, Fe transport (5) TonB-dependent receptor (1) |
| 3029 | group_3029 | cirA (5) | Outer membrane receptor protein, Fe transport (5) TonB-dependent receptor (1) |
| 3030 | group_3030 | fimD (5) | Outer membrane usher protein FimD/PapC (5) FimD/PapC N-terminal domain-containing protein (1) |
| 4568 | group_4568 | - | hypothetical protein (1) |
