LOCUS       NZ_CP095527             5166 bp    DNA     linear   CON 20-JAN-2024
DEFINITION  Escherichia coli strain GN05505 plasmid p5505-3.
ACCESSION   NZ_CP095527
VERSION     NZ_CP095527.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN27361466
            Assembly: GCF_026651205.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5166)
  AUTHORS   Bethke,J.H., Ma,H.R., Tsoi,R., Cheng,L., Xiao,M. and You,L.
  TITLE     Vertical and horizontal gene transfer tradeoffs direct plasmid
            fitness
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5166)
  AUTHORS   Bethke,J.H., Ma,H.R., Tsoi,R., Cheng,L., Xiao,M. and You,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-APR-2022) Molecular Genetics and Microbiology, Duke
            University, CIEMAS Building 101 Science Drive, Durham, NC 27705, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. 6.0.0.47841
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 217x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/20/2024 05:04:32
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,345
            CDSs (total)                      :: 5,226
            Genes (coding)                    :: 5,043
            CDSs (with protein)               :: 5,043
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 183
            CDSs (without protein)            :: 183
            Pseudo Genes (ambiguous residues) :: 0 of 183
            Pseudo Genes (frameshifted)       :: 60 of 183
            Pseudo Genes (incomplete)         :: 128 of 183
            Pseudo Genes (internal stop)      :: 30 of 183
            Pseudo Genes (multiple problems)  :: 36 of 183
            Pseudo Genes (short protein)      :: 4 of 183
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP095527.1.
            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/
FEATURES             Location/Qualifiers
     source          1..5166
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="GN05505"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p5505-3"
                     /geo_loc_name="USA"
                     /lat_lon="36 N 78.9 W"
                     /collection_date="2013"
                     /collected_by="Vance G. Fowler Jr."
                     /genotype="69"
     gene            complement(<1..195)
                     /locus_tag="MW395_RS26130"
                     /old_locus_tag="MW395_26125"
     CDS             complement(<1..195)
                     /locus_tag="MW395_RS26130"
                     /old_locus_tag="MW395_26125"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_588470.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_042035053.1"
                     /translation="MAKLGENTPHIIDATVDFMASSQAFREYLKKLPPDNTIPPALTDE
                     HVPLYIRRLEYYRLLYRPKQ"
                     /name="hypothetical protein"
     gene            1933..2847
                     /locus_tag="MW395_RS26135"
                     /old_locus_tag="MW395_26130"
     CDS             1933..2847
                     /locus_tag="MW395_RS26135"
                     /old_locus_tag="MW395_26130"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /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_001271348.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            complement(3051..3449)
                     /locus_tag="MW395_RS26140"
                     /old_locus_tag="MW395_26135"
     CDS             complement(3051..3449)
                     /locus_tag="MW395_RS26140"
                     /old_locus_tag="MW395_26135"
                     /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="hypothetical protein"
                     /protein_id="WP_001222914.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLIDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            3626..4552
                     /locus_tag="MW395_RS26145"
                     /old_locus_tag="MW395_26140"
     CDS             3626..4552
                     /locus_tag="MW395_RS26145"
                     /old_locus_tag="MW395_26140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_001331297.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTAPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            4555..5088
                     /locus_tag="MW395_RS26150"
                     /old_locus_tag="MW395_26145"
     CDS             4555..5088
                     /locus_tag="MW395_RS26150"
                     /old_locus_tag="MW395_26145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168770.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     Typing          1934..2708
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          3627..4549
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ctgctttggt cgataaagca gacgatagta ttccagcctt cgtatatata acggtacgtg
       61 ctcatcagta agagctggcg gtattgtgtt atcaggggga agttttttca gatactcacg
      121 aaatgcctgg cttgatgcca taaaatctac agtagcatcg ataatatgtg gggtgttttc
      181 acctaatttt gccatgatga taatccttat attatcacgg tttgtgaatg atagggtgtc
      241 actattattt atgcgttagt gaaccagaaa aaatcccccg ttggcatagg gggatatgta
      301 aggagaaata acttcgcagg tgttcttgtt tgtataacgt gaaaagactg cacgcaactt
      361 aataagtctg ccgtacttac tttcagtttt caacataagg tttataacaa tgtatggaat
      421 ggaagtgagc tttaaggttt cagctctaaa aaataaaata tttattagtt ggctggttgt
      481 tgttcttgtt ctgtatgtat ataaacacta tcgacatatt atgaccggga acattcctta
      541 ccccctctgc gctcgcagag gttttttttt gtcattaatt aataatgaac tgaaatgcag
      601 ttccgatacc tccatttgca cattatccct gacatatggt accggaaccg cattaatttt
      661 atgttataag agtttatttt taatgtccag atggtttaat agtatttata tgtaattagc
      721 tgtatggata gtactggttt tattgtataa cttgtcgttt ttttttattg tttttgtgtg
      781 gtgtgctaat ctttaagtta taaaaaaacc ccttggaata caggggcaaa agtaaggaaa
      841 acaaatggat gctcagtttg tgtgacactt taaactaatg gaactataga gtggaggttg
      901 ttacagtcgc ttttataaaa cagcaaccag tttttttcaa tagtctgatg atggttgtga
      961 cagttttgtg atattgttca aaatgtttct tgttgaatgt ttgttttttg gtctattggt
     1021 gtctggtttt attttttctg ctattacata tcaagaaatg tgattggtgt agcaagagtg
     1081 gaatgcgatg tggataaact aattggttgt cgaatctaat ttacttagaa aactacactt
     1141 gtttttgtgt atgaatttag tgaatttgtc tgtctatgtg ttttcgtgca tttataaatc
     1201 cttcgtcagg atcttaaatt tagtgttgaa tatgtagggc ctgtacggta attattattt
     1261 agcgtagcta cttcatcgtt gttcgaacac aaccaacaac ctgtaattgt tgtttctctt
     1321 ggttccccac ttttgtgggg ttttttatct cttccgtgca tcgtaaagcg cggactcctt
     1381 ctggaaaggt tgttttaggg catcactgag gcattttttg cgtttgtgaa tattgagcat
     1441 ccgataacta aaatatttcc catagactct gattcttgcc accgacccca ggtcggtttt
     1501 tttttgtcct ggcgagatgt gaagtttgga aacaggaaac cccgtcagag cgccacgcac
     1561 caggggagaa aacttgtcgt tttgagccgt tcggtgttca gaacgcacga aaccgatcgc
     1621 acatcgcttt cgtgcatagt tatgcaacgc cctgaaaacg attctgacgc gtttttctgg
     1681 tttggcctgg tgttttcttg tctttttgcg ttttttgcgc cagaaagcga ctgagggcgt
     1741 tttaaggggg gcgtacaacg ggagttatgg taaatggatc gggttttcgg gaaggttcga
     1801 caggatttgc cgttgggtgt agtgtaagcg actgaaaaac aaacgcccct gaaatcatgt
     1861 ccagatccgg caagattcaa catgaaatac agagggcgtg taggtcgcat aacccggaga
     1921 gaatcgtaac acatgagcgc cgcgcttcaa tacttcgacg aaaatttacc ccatcgtccc
     1981 tatcacacgg atgatctcgc ttttggtctt cgcatctccg gcaaagggcg tgcgcttctt
     2041 gcgcggtaca tacagcagaa ccagcctcat gcgcagttct ggctggtttt tgacgttgac
     2101 cgcgaggggg ctgcgattga ctggagcgac cggaacgctc ccgcgccgaa catcaccgtt
     2161 aaaaatcctg tgaacggaca cgctcacctg ctctacgcac tcaacatcgc cgtgagaacc
     2221 gcgcctgatg cctcggttaa ggcgctgaaa tatgccgcag cggttgaacg ttcgctgtgt
     2281 gagaaacttt gtgcggatgt gaactacagc ggcctgattt gcaaaaatcc gttccacctg
     2341 gaatggctgg tgatggagtg gcgcgaggaa gcctataccc tcgatgaact ggctgattat
     2401 ctcgatttga gcgcctcaga gcgtcgtagc atcgataaac attacgggat ggggcgaaac
     2461 tgccacctgt tcgaaatgac gcgcaaatgg gcttacaggg cgattcgtca gggctggcca
     2521 gcgttctcac agtggcttga agcggtgatc cagcgtgtcg aaatgtacaa tgcatcgctt
     2581 cccgttccgc tttcactggc tgaatgtcgg gctattggca agagcattgc gaaatacacg
     2641 cacaggaact tcacgccgga aactttcgca cagtatgtgg ctgatacgca cacgccagaa
     2701 attcaggctg cacgcggtcg caagggcggt tctaagtcta agcgcagcac agtagctaca
     2761 tctgcacgca cgctgaaacc gtgggaggca ttagggatca gtcgcgcctg gtattaccaa
     2821 ctgaaaaaac gaggtctcgt agagtagacc aaataagcct atatcagata acagcgcctt
     2881 tctggcgtct ttttgagcag caggtttttt gccgtttttc cccgttcagc cctgcaatgg
     2941 cgcggctttc cgcgtgattg tggtggtagt gctcgccgca gtctcatgac cgagcgtagc
     3001 gagcgaatga gcgaggaagc accagggaat cggaacacgg atggaggcac ttacgcgtct
     3061 gggtttgggg atgtctccag atcgtactta agttccttaa gtgcttgtaa tatcctgtct
     3121 tttttatagc atagctcgcc tgtttttgtg tctaccagtc ctgcttcgat cagtagccca
     3181 gccgcgagaa agagccggtg attgcgttcc cgtcgttgtt tttttccctc gattcgtttt
     3241 tggaccgcct gttttcgttc gctctcctgt gcctgtaagt cgtttttttc cgctgttgcc
     3301 agtacgtgga gaagtttgcg ttcctgttct gtgagtccgg cttcgttgtc gatcaggtca
     3361 ataatctgtc tctgtcgtgc ggtctgttct ccgagcttcc tgatgaatcc gatccgtttc
     3421 ttcagccatt cgatgttgct gatgcgcatg ttcgtgatgc tccctggtgt ttttttgcgg
     3481 tgtgttgtgg tcgtgcagta tatcgcttgc ggtcggcggg tgcagggggt atcttccgtg
     3541 ctaattcgta aaattagaag gaagcgcact tatatgtttc tctccttcgt cgagaaacag
     3601 tgcgctcctg cagagggctg aaaccgtggc aacctatcac ctcagcgtta aatttggtgg
     3661 caaggggcag gctgcaaacc acgccgatta catcgagcgc aaagagaaat accgcgaccg
     3721 tcaggatttg gaatattccg cacacggaaa catgccggaa tgggccaggg ataatccttc
     3781 ccatttctgg caggcggctg accagtttga acgtgcgaac ggttcgacct atagggaact
     3841 tgaaattgca ttaccccgtg aactgacacc ggaacagcgc cttgaactgg tgcaggattt
     3901 tgtacgtcag gaagctggcg aacggcacgc ctggagtttt gccattcaca atccgaaagc
     3961 gagcattgac ggcggcgaac agcctcatgc gcatatcatg atgagtcagc gtgtgaatga
     4021 tggcattgaa cgtacaccgg aacagtattt ccggcgctat aacgccaggt atcccgagcg
     4081 gggaggtgcg aaaaaggatt ccggaagcct gactctcact cagcaaaaag agcagttgcg
     4141 ggaattgcga aaacgctggg aggtgaagca caacgaacat atgagaaagc atggctttga
     4201 aaggggcttc attgactgcc ggacgctgaa agaacagggc attgaacgac gtcccgaagt
     4261 gcatctgggt tttgaagctg ccggacggct tgatgatgcc cagcgtcatg acatcatgca
     4321 aaaacggtct gaaccggact attcccgcca tcttgaacag gcgcgaacgg tcgggcatga
     4381 catcagggaa tggctggaca ctccggttaa gcaacatgaa ctggtcagaa ggctgcaaca
     4441 tgatgttgcg cgggagcatg gctttgacat gagagacaga gtgagcagac agaaccgaac
     4501 tgcacctgaa cgggttaaat caccgtcacg tggattttct atgggattct gaacatggcc
     4561 agcacagaag aaaaattact cacgctcctg ttatcggtgg agcatctgca acataccgca
     4621 atggagcaac agaaagctgt tgctgattct ctggctgtgg caagggaaac tcttcgcgga
     4681 tatcgggata tttctgacgg tgtggcaaaa caggtcaggg atgaagtcag aaatgaggtg
     4741 cagaagctgg acgtggcagg actgataggt gagcgcatca gccaggattt tcagcggctg
     4801 gaagagtcag tcgcaaacat gaaggcaaac gcggatgccc tgaacaggga tattgcgaca
     4861 attcacagca atatcgtgca ggaatacaac acccttaaag ggtatagctg gaaatggctg
     4921 ggtggggtgt cagtggcttt tctggttatg ttctgtgtgc tcggatgggg aatgaaaaca
     4981 atactcgaca ggaactacaa cgccacagcg gcggtgtatc agaaagttgt gacactggaa
     5041 gataaactgg tggagaaacc tgtcacgggg aagagccgga aaaactgacg cgcttcgctt
     5101 gtccaacgcc tcacgacccg cgaaaggatt tcgcgaaccg ttcaccgttt ttttcatatg
     5161 atttgt
//
