Genome Information

PAthogenisity Island DataBase (PAI DB)

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Genome Information

• General information

Accession:

Strain :

Shigella flexneri

Type :

Size :

G+C content :

[Note]

• PAIs (PAI reported to be located in this genome)

No	Name	Start	End	Size(bp)	Insertion Site	Function
1	SHI-1	3052463	3099119	46657	tRNA-phe	Enterotoxin, proteases (SigA, Pic (She), Shet1A and Shet1B, Sap)
2	SHI-2	3806403	3835199	28797	tRNA-selC	Iron uptake systems, immunity to colicin V (IucA, IucB, IucC, IucD, IutA, aerobactin)

• cPAIs (PAI-like region overlapping genomic islands (candidate PAI))

*

No	Start	End	Size(bp)	No. of ORFs	G+C content	No. of homologs of PAI-virulence genes	PAIs homologous to this region
1	311201	332795	21595	28	44.58 %	3	LEE (Escherichia coli 11128) TAI (Escherichia coli O157:H7 EDL933) TAI (Escherichia coli O157:H7 EDL933) PAI I CFT073 (Escherichia coli CFT073) PAI I CFT073 (Escherichia coli CFT073) SHI-2 (Shigella flexneri M90T) SHI-O (Shigella flexneri Y53) Not named (Shigella flexneri )
2	1405360	1425018	19659	23	48.69 %	5	PAI II CFT073 (Escherichia coli CFT073) SPI-1 (Salmonella typhimurium LT2) SPI-1 (Salmonella enterica subsp. enterica serovar Typhi CT18) SPI-1 (Salmonella enterica subsp. enterica serovar Typhi Ty2) SPI-1 (Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67) centisome 63 pathogenicity island (Salmonella enterica SL1344) SHI-2 (Shigella flexneri M90T) SHI-2 (Shigella flexneri 2a str. 301) SHI-2 (Shigella flexneri 2a str. 2457T)
3	3052463	3103044	50582	44	49.04 %	26	PAI I 536 (Escherichia coli 536) PAI I APEC-O1 (Escherichia coli APEC O1) PAI I APEC-O1 (Escherichia coli APEC O1) LEE (Escherichia coli 84/110-1) LEE (Escherichia coli RW1374) LEE (Escherichia coli 12009) LEE (Escherichia coli 11128) AGI-3 (Escherichia coli BEN2908) PAI II 536 (Escherichia coli 536) TAI (Escherichia coli O157:H7 EDL933) TAI (Escherichia coli O157:H7 EDL933) PAI III 536 (Escherichia coli 536) PAI V 536 (Escherichia coli 536) PAI II CFT073 (Escherichia coli CFT073) PAI II CFT073 (Escherichia coli CFT073) PAI-I AL862 (Escherichia coli AL862) Not named (Escherichia coli UMN026) SHI-1 (Shigella flexneri YSH6000T) SHI-1 (Shigella flexneri 2a str. 301) SHI-1 (Shigella flexneri 2a str. 2457T) SHI-2 (Shigella flexneri M90T) SRL (Shigella flexneri YSH6000)
4	3806403	3835199	28797	29	48.44 %	12	LEE (Escherichia coli 11128) TAI (Escherichia coli O157:H7 EDL933) TAI (Escherichia coli O157:H7 EDL933) PAI II CFT073 (Escherichia coli CFT073) Not named (Escherichia coli UMN026) SHI-2 (Shigella flexneri M90T) SHI-2 (Shigella flexneri 2a str. 301) SHI-2 (Shigella flexneri 2a str. 2457T) SHI-3 (Shigella boydii 0-1392)

• nPAIs (PAI-like region not overlapping genomic islands (non-probable PAI))

*

No	Start	End	Size(bp)	No. of ORFs	G+C content	No. of homologs of PAI-virulence genes	PAIs homologous to this region
1	1222570	1236017	13448	13	51.28 %	2	PAI I CFT073 (Escherichia coli CFT073)
2	1956132	1964517	8386	10	52.27 %	1	LEE (Escherichia coli 11128) PAI II 536 (Escherichia coli 536)
3	2303835	2319644	15810	16	52.21 %	1	Not named (Cronobacter sakazakii ATCC BAA-894) PAGI-2(C) (Pseudomonas aeruginosa C) SPI-12 (Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67)

• REIs (REI reported to be located in this genome)

• cREIs (REI-like region overlapping genomic islands (candidate REI))

*

No	Start	End	Size(bp)	No. of ORFs	G+C content	No. of homologs of REI-resistance genes	REIs homologous to this region
1	3845255	3858525	13271	15	49.19 %	1	PAI I CFT073 (Escherichia coli CFT073) PAI-I AL862 (Escherichia coli AL862)

• nREIs (REI-like region not overlapping genomic islands (non-probable REI))

*

No	Start	End	Size(bp)	No. of ORFs	G+C content	No. of homologs of REI-resistance genes	REIs homologous to this region
1	492546	504542	11997	10	51.46 %	1	PAI II CFT073 (Escherichia coli CFT073) Not named (Escherichia coli UMN026) SHI-1 (Shigella flexneri 2a str. 301) SHI-2 (Shigella flexneri M90T) SHI-2 (Shigella flexneri 2a str. 301) SHI-2 (Shigella flexneri 2a str. 2457T)
2	4545871	4557825	11955	12	52.29 %	1	tcd island (Photorhabdus luminescens W14)