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 GIC21
GIs list: lists the 2 occurences of the GI cluster within the database. The table reports information on each occurence.
Orthogroup list: lists the 91 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 | GIC21 |
|---|---|
| Length | 36426 |
×
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 | |
|---|---|---|---|---|---|---|
| 54 | GI54 | Proteus mirabilis HI4320 | NC_010554 | 528035 | 548562 | 20527 |
| 56 | GI56 | Proteus mirabilis HI4320 | NC_010554 | 988902 | 1041227 | 52325 |
| Orthogroup | Products | Genes | |
|---|---|---|---|
| 4611 | group_4611 | - | hypothetical protein (1) |
| 3 | group_3 | rrrD (5) | Lysozyme (19) Phage-related lysozyme (muramidase), GH24 family (5) lysozyme (3) |
| 4112 | group_4112 | - | DUF3168 domain-containing protein (1) |
| 4119 | group_4119 | - | hypothetical protein (1) |
| 3098 | group_3098 | - | phage major capsid protein (6) |
| 4636 | group_4636 | - | hypothetical protein (1) |
| 4139 | group_4139 | - | hypothetical protein (1) |
| 3125 | group_3125 | - | Phage protein (3) hypothetical protein (3) |
| 3641 | group_3641 | - | hypothetical protein (5) |
| 3651 | group_3651 | chbR (1) | AraC family transcriptional regulator (2) helix-turn-helix domain-containing protein (1) transcriptional regulator ChbR (1) |
| 75 | group_75 | - | DUF2591 domain-containing protein (10) phage protein NinX family protein (1) DUF2591 family protein (1) |
| 4694 | group_4694 | - | hypothetical protein (1) |
| 4695 | group_4695 | - | DUF4035 domain-containing protein (1) |
| 102 | group_102 | - | Tape measure domain-containing protein (5) tape measure protein (5) phage tail tape measure protein (1) |
| 103 | group_103 | - | Terminase (10) hypothetical protein (1) |
| 104 | group_104 | ninB (10) | Recombination protein NinB (5) NinB protein (5) YbcN family protein (1) |
| 105 | group_105 | - | Regulatory protein (10) hypothetical protein (1) |
| 4200 | group_4200 | - | hypothetical protein (1) |
| 4714 | group_4714 | - | hypothetical protein (1) |
| 4721 | group_4721 | - | HNH endonuclease (1) |
| 4217 | group_4217 | - | DUF1440 domain-containing protein (1) |
| 121 | group_121 | thiQ (7) fetA (1) |
thiamine ABC transporter ATP-binding protein ThiQ (7) AAA family ATPase (2) iron ABC transporter ATP-binding protein FetA (1) ATP-binding protein (1) |
| 128 | group_128 | - | HK97-gp10 family putative phage morphogenesis protein (10) HK97 gp10 family phage protein (1) |
| 129 | group_129 | - | phage portal protein (7) Phage portal protein, HK97 family (4) |
| 4227 | group_4227 | - | head-tail connector protein (1) |
| 2694 | group_2694 | - | Cloacin (5) colicin E3-like toxin immunity protein (1) |
| 146 | group_146 | - | Cytoplasmic protein (1) HNH nuclease domain-containing protein (5) DUF968 domain-containing protein (4) |
| 147 | group_147 | - | Primosomal protein I (9) helix-turn-helix domain-containing protein (1) |
| 3732 | group_3732 | - | DNA helicase (1) DnaB-like helicase C-terminal domain-containing protein (1) |
| 149 | group_149 | - | hypothetical protein (10) |
| 150 | group_150 | ymfL (9) | YmfL family putative regulatory protein (10) |
| 148 | group_148 | - | DUF4222 domain-containing protein (10) |
| 4760 | group_4760 | - | hypothetical protein (1) |
| 3730 | group_3730 | cspA (1) | RNA chaperone/antiterminator CspA (1) cold-shock protein (1) |
| 3737 | group_3737 | - | site-specific DNA-methyltransferase (2) |
| 4252 | group_4252 | - | hypothetical protein (1) |
| 4766 | group_4766 | - | hypothetical protein (1) |
| 3745 | group_3745 | - | AAA family ATPase (2) |
| 1704 | group_1704 | - | HTH cro/C1-type domain-containing protein (5) Uncharacterized HTH-type transcriptional regulator HI_1476 (1) S24 family peptidase (1) |
| 3752 | group_3752 | - | Antitermination protein Q (1) antiterminator Q family protein (1) |
| 4283 | group_4283 | - | hypothetical protein (1) |
| 193 | group_193 | - | Phage antitermination protein Q (8) bacteriophage antitermination protein Q (1) |
| 4816 | group_4816 | - | hypothetical protein (1) |
| 214 | group_214 | - | DNA replication protein (5) replication protein (1) hypothetical protein (1) conserved phage C-terminal domain-containing protein (1) |
| 4332 | group_4332 | - | hypothetical protein (1) |
| 4855 | group_4855 | - | hypothetical protein (1) |
| 4866 | group_4866 | - | helix-turn-helix transcriptional regulator (1) |
| 4355 | group_4355 | - | phage head closure protein (1) |
| 4358 | group_4358 | recT (1) | recombination protein RecT (1) |
| 3846 | group_3846 | - | DUF1364 domain-containing protein (2) |
| 4880 | group_4880 | - | HK97 family phage prohead protease (1) |
| 4890 | group_4890 | - | hypothetical protein (1) |
| 4394 | group_4394 | - | helix-turn-helix domain-containing protein (1) |
| 3886 | group_3886 | - | HNH endonuclease (1) hypothetical protein (1) |
| 3887 | group_3887 | - | hypothetical protein (2) |
| 3888 | group_3888 | - | hypothetical protein (2) |
| 3889 | group_3889 | - | hypothetical protein (2) |
| 3890 | group_3890 | - | hypothetical protein (2) |
| 3891 | group_3891 | - | hypothetical protein (2) |
| 3378 | group_3378 | - | Prophage protein (4) hypothetical protein (1) |
| 3892 | group_3892 | - | phage tail protein (1) hypothetical protein (1) |
| 3893 | group_3893 | - | hypothetical protein (2) |
| 2372 | group_2372 | - | Exodeoxyribonuclease VIII (5) PD-(D/E)XK nuclease-like domain-containing protein (2) |
| 2373 | group_2373 | ymfN (1) | Terminase (5) Phage terminase-like protein, large subunit, contains N-terminal HTH domain (1) terminase large subunit (1) |
| 2374 | group_2374 | - | phage terminase small subunit P27 family (7) |
| 2375 | group_2375 | - | Excisionase (5) excisionase (2) |
| 2898 | group_2898 | - | Phage protein (5) hypothetical protein (1) |
| 2899 | group_2899 | - | phage antirepressor KilAC domain-containing protein (5) phage regulatory protein/antirepressor Ant (1) |
| 4948 | group_4948 | - | Cro/CI family transcriptional regulator (1) |
| 3925 | group_3925 | - | hypothetical protein (1) |
| 2919 | group_2919 | - | lysis protein (5) lysis system i-spanin subunit Rz (1) |
| 4461 | group_4461 | - | YqaE/Pmp3 family membrane protein (1) |
| 376 | group_376 | - | Integrase (5) tyrosine-type recombinase/integrase (1) site-specific integrase (1) phage integrase Arm DNA-binding domain-containing protein (1) |
| 4475 | group_4475 | - | DUF4747 family protein (1) |
| 4477 | group_4477 | - | hypothetical protein (1) |
| 3971 | group_3971 | - | hypothetical protein (1) |
| 3977 | group_3977 | - | hypothetical protein (1) |
| 2442 | group_2442 | - | Phage tail protein (5) DUF1983 domain-containing protein (1) phage tail protein (1) |
| 4502 | group_4502 | - | carboxymuconolactone decarboxylase family protein (1) |
| 2466 | group_2466 | - | hypothetical protein (7) |
| 4522 | group_4522 | - | Bro-N domain-containing protein (1) |
| 2477 | group_2477 | - | helix-turn-helix transcriptional regulator (7) |
| 1973 | group_1973 | - | Transposase (5) transposase (2) |
| 4028 | group_4028 | - | excisionase (1) |
| 4544 | group_4544 | - | hypothetical protein (1) |
| 4044 | group_4044 | - | antiterminator Q family protein (1) |
| 4050 | group_4050 | - | hypothetical protein (1) |
| 4573 | group_4573 | - | helix-turn-helix domain-containing protein (1) |
| 4594 | group_4594 | - | dsDNA nuclease domain-containing protein (1) |
| 507 | group_507 | - | hypothetical protein (7) |
| 3068 | group_3068 | rusA (5) | RusA family crossover junction endodeoxyribonuclease (6) |
