LOCUS       NZ_CP092256             5249 bp    DNA     circular CON 08-MAY-2024
DEFINITION  Escherichia coli strain ISHS7 plasmid pISHS7_4, complete sequence.
ACCESSION   NZ_CP092256
VERSION     NZ_CP092256.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN25898031
            Assembly: GCF_022349925.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5249)
  AUTHORS   Sung,I.S., Lai,G.K., Griffin,S.D. and Leung,F.C.
  TITLE     Complete genome sequence of Escherichia coli ISHS7, isolated from
            faeces of a domestic cat (Felix catus domesticus)
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5249)
  AUTHORS   Sung,I.S., Lai,G.K., Griffin,S.D. and Leung,F.C.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-FEB-2022) Shuyuan Molecular Biology Laboratory, The
            Independent Schools Foundation Academy, 1 Kong Sin Wan Road,
            Pokfulam, Hong Kong HK SAR, Hong Kong
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 19-OCT-2021
            Assembly Method                   :: Unicycler v. 0.4.8-beta
            Assembly Name                     :: Irwin_Ecoli_ISHS7cat
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 70.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022349925.1-RS_2024_05_08
            Annotation Date                   :: 05/08/2024 06:16:38
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,916
            CDSs (total)                      :: 4,798
            Genes (coding)                    :: 4,625
            CDSs (with protein)               :: 4,625
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 173
            CDSs (without protein)            :: 173
            Pseudo Genes (ambiguous residues) :: 0 of 173
            Pseudo Genes (frameshifted)       :: 73 of 173
            Pseudo Genes (incomplete)         :: 103 of 173
            Pseudo Genes (internal stop)      :: 35 of 173
            Pseudo Genes (multiple problems)  :: 37 of 173
            Pseudo Genes (short protein)      :: 2 of 173
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP092256.1.
            Bacteria and source DNA available from Dr. Simon D. J. Griffin,
            Shuyuan Molecular Biology Laboratory, ISF Academy, 1 Kong Sin Road,
            Pokfulam, Hong Kong.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..5249
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ISHS7"
                     /isolation_source="feces"
                     /host="Felix catus domesticus"
                     /db_xref="taxon:562"
                     /plasmid="pISHS7_4"
                     /geo_loc_name="Hong Kong: North Point"
                     /lat_lon="22.285459 N 114.201753 E"
                     /collection_date="2020-06-18"
                     /collected_by="Irwin S. H. Sung"
     gene            complement(join(4629..5249,1..456))
                     /locus_tag="MF614_RS24405"
                     /old_locus_tag="MF614_24405"
     CDS             complement(join(4629..5249,1..456))
                     /locus_tag="MF614_RS24405"
                     /old_locus_tag="MF614_24405"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="type IV secretion system protein"
                     /protein_id="WP_052323655.1"
                     /translation="MATDNTYPVYDGNFFRATHDIILRAVEKSTSGMFDNYINIAYTLG
                     KYGVSLYILWYAFTVLARKQQTPVPDFIWNLCRFSIILMFVKNTGGWLDNANQAIDGLK
                     ETLAGGDPWLWMDQLWDKVITVGKKVWHLDTDTIPVVGVAAALLTYAGGILAMIVCAIV
                     FFSAEITLKILSITAPLFIMCLMFGFLRQMFNNWLQLIFSSLLIFMFAALALRAGMWQL
                     NGTLSSTLSSATAPNLFEAGATVLVSGIFMAWIIWQAKTYASQLAGVGVEGAMQGAAAM
                     GIGAGIFGASRMTRGALGMGRNAGIGAWKGLRRQEGGFGQSPGITGKAANLAGQGVNIG
                     AKKLRQAAIERAKKMYGG"
                     /name="type IV secretion system protein"
     gene            complement(470..739)
                     /locus_tag="MF614_RS24410"
                     /old_locus_tag="MF614_24410"
     CDS             complement(470..739)
                     /locus_tag="MF614_RS24410"
                     /old_locus_tag="MF614_24410"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001677227.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="EexN family lipoprotein"
                     /protein_id="WP_047662946.1"
                     /translation="MKYIVLVFLASLSFILTGCNEDTKSVDWWTNHPKEAVDKYKECKK
                     TGSDSDNCKNVRRAGLIIADTYPPMSEIYKQEARELDKKLGVSK"
                     /name="EexN family lipoprotein"
     gene            complement(749..1507)
                     /locus_tag="MF614_RS24415"
                     /old_locus_tag="MF614_24415"
     CDS             complement(749..1507)
                     /locus_tag="MF614_RS24415"
                     /old_locus_tag="MF614_24415"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001677228.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type IV secretion system protein"
                     /protein_id="WP_047662945.1"
                     /translation="MKKRIISAVLASLSVISVAQAGIPVAIDANPEWAVEAGRWTERLK
                     QWAETVKHYENQINAYKQELLSKTGIRDVQGLVQSAQSVSQELMQIYDQGNAFIDDYIK
                     NPESALSEQAKSLLSDYRVTDTCQNLGYSGDQVRGCEATFLSQLASVEYGNKLESKLRQ
                     DNQTMKDLIEQVKNAKDTKATQDATNAVALEQLKFEKLKFQYQMYIDKQKQLSEYKKEM
                     AKASFRHEQINAKPIDYREAFSTQDFDLIK"
                     /name="type IV secretion system protein"
     gene            complement(1929..2660)
                     /locus_tag="MF614_RS24420"
                     /old_locus_tag="MF614_24420"
     CDS             complement(1929..2660)
                     /locus_tag="MF614_RS24420"
                     /old_locus_tag="MF614_24420"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001677229.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_021579673.1"
                     /translation="MTKKNVDQPMTMTVSLRGKNVVMSNAISRAAQSLSLAEKRIIFAA
                     IAQMGGKYAPVRITAQEYANTFGMPLKQAYSQLKEASENFFNRYIRFKLNEVSEIDVDV
                     WKIRWLGAYKYNDGEANVLLHFTPQVMPYLCELEDNFTKYQLSQACALRSVHSWRLLEL
                     FEQMNTNKENNGWLSISLEDFHHAMESPDSYKTTFGLLRKYMIEPAVKELTEKDHWMID
                     WKPIKKGRKVVRLEFWFRKEN"
                     /name="replication initiation protein"
     gene            complement(3767..4312)
                     /gene="ddp1"
                     /locus_tag="MF614_RS24425"
                     /old_locus_tag="MF614_24425"
     CDS             complement(3767..4312)
                     /gene="ddp1"
                     /locus_tag="MF614_RS24425"
                     /old_locus_tag="MF614_24425"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000757693.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA distortion polypeptide 1"
                     /protein_id="WP_239371720.1"
                     /translation="MKQIKFRLDDAKHHDLLICLKSLYPDEPGLTVSKGMKLLANALLK
                     SKKTNQIQNDYADENNFIKTTLYLTGKQRADIEKAANRHGWTLSRECRYRIQTTLNNRL
                     DFFDQELLMMNRCRNSIDKIGRNFHYIIVNDQTRVLDKDGFYQDVERLKTEIFSLKNQF
                     ENYIMLCKGRTVSNKVDV"
                     /name="ddp1"
     gene            complement(4424..4627)
                     /locus_tag="MF614_RS24430"
                     /old_locus_tag="MF614_24430"
     CDS             complement(4424..4627)
                     /locus_tag="MF614_RS24430"
                     /old_locus_tag="MF614_24430"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001677232.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_047662947.1"
                     /translation="MSDINFGIFFIIAFGFITVGSFFIVLIRFLERAETILIGHLDLKS
                     KAIIHGLIILFIYWTLKFFAES"
                     /name="hypothetical protein"
     Typing          complement(4633..5249)
                     /name="MPF_T"
                     /typing="mate-pair-formation"
                     /tool="MOB-suite"
                     /identity="80.583"
                     /coverage="99.0"
                     /evalue="2.69e-82"
ORIGIN
        1 tccggcataa gtaagcaagg ccgctgcaac acctacaact gggattgtat ctgtatcaag
       61 atgccaaacc tttttaccaa cagtaattac tttatcccaa agttgatcca tccataacca
      121 aggatcacca ccggcgagag tctcttttaa gccatctata gcttgattgg cgttatcaag
      181 ccatccccct gtatttttaa cgaacattaa aattatcgaa aacctgcaca aattccagat
      241 aaaatctgga acaggagttt gttgttttct tgctaagaca gtgaatgcat accataagat
      301 atataaagaa acaccatatt tacccagtgt ataagcaata tttatataat tatcaaacat
      361 tcctgatgtt gatttctcaa ctgctcttaa tattatatca tgagttgctc taaagaaatt
      421 tccatcatat acgggataag tattatctgt agccatataa ccccctcggt tattttgaaa
      481 cgcctaattt cttatcaagt tctctggctt cttgcttgta tatttcactc atcggaggat
      541 aagtgtcagc gattataagt cccgcacgtc ttacgttttt acaattatct gagtcacttc
      601 ctgttttctt gcattcttta tatttatcga cagcttcttt cgggtgatta gtccaccaat
      661 cgacagattt tgtatcttca ttacatccgg taagaataaa tgataaagat gctaaaaata
      721 ccaagacgat atatttcata aaaacccctt atttgatcaa atcaaagtct tgtgttgaaa
      781 atgcttctct gtaatcaatt ggttttgcat taatttgttc atgacgaaaa gaagctttcg
      841 ccatttcctt tttatattca gacagttgtt tttgtttatc gatgtacatt tgatactgaa
      901 atttgagctt ctcaaacttc agttgttcaa gtgcaacggc gtttgttgca tcctgcgtgg
      961 ctttcgtatc cttcgcattt ttaacctgct cgataaggtc tttcattgtc tgattgtcct
     1021 gacgaagctt gctctccagc ttgttaccgt attccacgct tgccagttga gaaaggaacg
     1081 tcgcttcaca tccccgtacc tggtcaccag aatatcccag gttctggcag gtatccgtta
     1141 ccctgtaatc tgacaataac gatttggcct gttccgataa cgcactttca ggatttttaa
     1201 tgtaatcgtc aataaaagca ttcccctgat cataaatctg catcagttcc tgactcactg
     1261 actgtgcgga ctgcaccagt ccctgcacat cacggatacc cgtttttgac agcagctcct
     1321 gtttgtacgc atttatctga ttttcgtaat gtttcaccgt ttctgcccat tgcttaaggc
     1381 gttctgtcca tcgtccggct tcaaccgccc attccggatt ggcatcaatg gcaacaggta
     1441 tccccgcctg agcgacggaa ataaccgaga gcgaggcgag caccgccgat ataatgcgtt
     1501 tcttcattat tgatctccac taaatataat cctgataatt agccctctcc tttaattaaa
     1561 gagagggcta acatcactta aacataccgc gattgtattc cttaagccag aatttaaagt
     1621 tacttacaat aaacctcgtg cccctgctag taattcggaa gcgacggatt aaatcactat
     1681 tacgaatacc ttcattactt gtgaacaaaa gatataaaga aaaagagaaa gggtctttct
     1741 caagggataa actaaatctc gagtttcctt ctttcctctt actatcaaga taagcgtaaa
     1801 attctttgcg ggtttttaac tgatattcag atatacttgg gccagccata cagcctccga
     1861 acaggttgtt gtggttagct ggtagtgagg gtggcagccc tcattaccag cgttaatcat
     1921 tgatatgatt agttttcttt cctaaaccag aactcaagac gaacgacttt tctccccttc
     1981 ttaataggtt tccagtcgat catccagtga tctttctctg ttaactcctt taccgccggt
     2041 tcaatcatat acttacgaag taatccaaac gttgttttat aactatcggg tgattccata
     2101 gcatgatgaa aatcttctaa cgatatggat aaccatccat tattttcctt gttcgtattc
     2161 atttgttcaa agagttctaa caaacgccat gaatgtactg aacgcaatgc gcaagcttga
     2221 gatagctgat acttcgtaaa attatcttcc agttcgcata aatatggcat tacttgaggc
     2281 gtaaaatgta aaagaacatt agcttcacca tcattatatt tatacgcccc taaccatcta
     2341 atcttccata catcaacatc aatctcacta acttcattta atttaaagcg aatatatcta
     2401 ttaaagaaat tttccgaagc ctcttttaat tgtgaatatg cttgctttaa aggcattcca
     2461 aaggtgttag catattcctg tgctgtaatc cttactggcg catatttccc acccatctga
     2521 gcaatagctg caaaaatgat gcgcttttca gccaaagaaa ggctttgcgc ggcacgagat
     2581 atagcattac tcatgacaac atttttgcca cgtaaactga cagtcatcgt cattggttgg
     2641 tcaacattct tcttggtcat tattcactca aaagtaagat gtacagggca agagtaagta
     2701 cgtaaatcat acttacaaaa aatgaaaagt aaaatcattt tttactctta cagttagctg
     2761 tggataatgc ccgaaaaaac ttacttttaa cccgaaaaaa cttactttta acccgaaaaa
     2821 acttactttt aacccgaaaa aacttacttt taactctgta acatcatgat tttaaaagag
     2881 ttttggcgtc taaaaaggtt ttaaaaagaa agataaaaag ggtttaaaaa ggaatttgcc
     2941 cccaaaatct gtggataacc atgctcaaac caagaggaca gatcacgtta agctagagca
     3001 acaataccta aaaacaatcc gctcattttt taaccgctat gcgtatgtgc tcaactcacc
     3061 tgcagactca cttccgcttc ctcgctcact cagtcgctac gctcctgccg ttcgactgcg
     3121 gcgagcggta ccacctctcg catgttgtcg gcgattccgt tgctgttctg ttcgaaaatg
     3181 cgttctgtga gccatccaga gcaccagaag gcgattttct ggtggtggta atggttttct
     3241 tcgtattggc ccttaaaacg cgctcagaag ctctcagacg cacgaaacag gttttaaatg
     3301 cccgtcaggg catggaaggc gcgaaaaacg attacagagc gtttcaggag gtcaggcgcg
     3361 ccgatacccc taaccagggg ctttcaggaa gcaggagacc gcgccagctc cctgcaaagg
     3421 ccgtttgcac aggaataaca acgatgatct cattactgga actgactaac gtttagacgt
     3481 gacaaaacac aagctaaccg tagttgctcg taataaatca catctctatg gagagagatt
     3541 ttttattatt gcgcaaagtt tatactataa acagtttaca gctatatcaa gactgaaata
     3601 gtaacaaatt tgccagtagt tccgtttcta ctagacgctc cttcgactcg gatgaccccg
     3661 aagcaaagaa aaaaacaaaa ggataaattc acatctcgca aagactctat cagcaacatg
     3721 tagtttattc aacaatacaa actagattta gttatcaatg tggacttcat acatctacct
     3781 tgtttgaaac tgttctcccc ttacataaca taatgtaatt ctcaaactga tttttaagac
     3841 taaaaatttc tgtcttaaga cgttccacat cctgatagaa accatcttta tcaagaaccc
     3901 tggtctgatc attaacaatg atataatgga aattacgacc gatcttatca attgaattac
     3961 ggcaacgatt catcatcagc agttcctggt cgaagaaatc aagcctatta ttcagtgtgg
     4021 tttgaatcct atatcgacat tcccgtgata atgtccaccc atgacggtta gctgcttttt
     4081 caatatcagc cctttgttta cctgttaagt aaagcgtggt tttgatgaaa ttgttttcat
     4141 cagcataatc attttgtatc tggttagttt ttttgctttt cagcaatgca ttggcaagca
     4201 gtttcatacc ttttgataca gtcaagcctg gttcatcagg ataaagagac tttaggcaga
     4261 tcagcaggtc atgatgcttg gcatcatcaa gcctgaattt gatttgtttc atatttgcac
     4321 ttcctacagc acatgaatat ttactccgat gcaggatagg gcaaacgccg caaaatggtc
     4381 ccattttggc cgtttgcccg gtgacctaca gtcggttctt tgattaagat tctgcaaaaa
     4441 atttaagcgt ccagtatata aataatataa ttaacccatg aataatggct ttagatttta
     4501 aatctaaatg accaatcaat atggtttctg cacgttcaag aaaacggata agcacaataa
     4561 aaaatgaacc aacagtaatg aagccaaatg cgattataaa aaagatacca aagttaatat
     4621 cactcatatt aaccaccgta catttttttt gctctctcaa tagcggcctg acgaagtttt
     4681 ttggcaccaa tattaacgcc ctgtccggcc aggttagcgg ctttgcccgt tattcccgga
     4741 gactgtccga acccgccttc ctgacgacgc agacctttcc atgcaccaat accggcattt
     4801 ctgcccatac caagtgcacc acgcgtcata cgggatgcac cgaaaatgcc agcaccaatc
     4861 cccatagcgg ctgcgccctg catggcacct tcaacaccca cgccagcaag ctgtgaagca
     4921 taggtttttg cctgccagat aatccatgcc ataaagatac ctgagacaag aactgtcgca
     4981 cctgcttcaa ataaattagg agctgttgct gaagataaag tgctgcttaa tgttccattc
     5041 aattgccaca tacctgcacg taacgccagt gctgcaaaca taaaaataag taatgaactg
     5101 aaaataagct gtaaccagtt attaaacatc tgacgaagaa aaccgaacat cagacacata
     5161 ataaataacg gtgctgtaat agaaaggatt tttaacgtaa tttctgctga aaaaaatact
     5221 attgcacaca cgatcattgc taaaatgcc
//
