LOCUS       NZ_CP056347             2746 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Citrobacter sp. RHBSTW-00696 plasmid pRHBSTW-00696_7, complete
            sequence.
ACCESSION   NZ_CP056347
VERSION     NZ_CP056347.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148686
            Assembly: GCF_013733095.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter sp. RHBSTW-00696
  ORGANISM  Citrobacter sp. RHBSTW-00696
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter.
REFERENCE   1  (bases 1 to 2746)
  AUTHORS   AbuOun,M., Jones,H., Stubberfield,E., Gilson,D., Shaw,L.P.,
            Hubbard,A.T.M., Chau,K.K., Sebra,R., Peto,T.E.A., Crook,D.W.,
            Read,D.S., Gweon,H.S., Walker,A.S., Stoesser,N., Smith,R.P.,
            Anjum,M.F. and On Behalf Of The Rehab,Consortium.
  TITLE     A genomic epidemiological study shows that prevalence of
            antimicrobial resistance in Enterobacterales is associated with the
            livestock host, as well as antimicrobial usage
  JOURNAL   Microb Genom 7 (10) (2021)
   PUBMED   34609275
REFERENCE   2  (bases 1 to 2746)
  AUTHORS   Shaw,L.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-JUN-2020) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.7
            Assembly Name                     :: WTP2 T2-00696
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 73.1206555606231x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:21:06
            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)                     :: 5,690
            CDSs (total)                      :: 5,572
            Genes (coding)                    :: 5,410
            CDSs (with protein)               :: 5,410
            Genes (RNA)                       :: 118
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 162
            CDSs (without protein)            :: 162
            Pseudo Genes (ambiguous residues) :: 0 of 162
            Pseudo Genes (frameshifted)       :: 42 of 162
            Pseudo Genes (incomplete)         :: 125 of 162
            Pseudo Genes (internal stop)      :: 24 of 162
            Pseudo Genes (multiple problems)  :: 25 of 162
            Pseudo Genes (short protein)      :: 1 of 162
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056347.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..2746
                     /organism="Citrobacter sp. RHBSTW-00696"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00696"
                     /isolation_source="Wastewater effluent sample"
                     /db_xref="taxon:2742662"
                     /plasmid="pRHBSTW-00696_7"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            889..1089
                     /locus_tag="HV269_RS28285"
                     /old_locus_tag="HV269_28275"
     CDS             889..1089
                     /locus_tag="HV269_RS28285"
                     /old_locus_tag="HV269_28275"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001046776.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_080484700.1"
                     /translation="MNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRHIVSDTNQAR
                     RACMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            complement(1137..1325)
                     /locus_tag="HV269_RS28290"
                     /old_locus_tag="HV269_28280"
     CDS             complement(1137..1325)
                     /locus_tag="HV269_RS28290"
                     /old_locus_tag="HV269_28280"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165998.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000165998.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDVLDLDDEAADCERMHEQA
                     EALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1654..2028
                     /locus_tag="HV269_RS28295"
                     /old_locus_tag="HV269_28285"
     CDS             1654..2028
                     /locus_tag="HV269_RS28295"
                     /old_locus_tag="HV269_28285"
                     /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_061335866.1"
                     /translation="MNGMSDVRLKKSTIESLKEYVNDFGMTVDDVVLNLIEENNSLKSL
                     LGQGFSLPGGDKDTHSFKDYVIHKLPKGKILVTKDGLKVSNMKKVLIEAGSAVGMDDKE
                     LNPDFTTYEIGRFLFKHLQG"
                     /name="hypothetical protein"
     gene            complement(2217..>2318)
                     /locus_tag="HV269_RS28300"
                     /old_locus_tag="HV269_28290"
                     /pseudo=""
     CDS             complement(2217..>2318)
                     /locus_tag="HV269_RS28300"
                     /old_locus_tag="HV269_28290"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011847251.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="IS30 family transposase"
                     /name="IS30 family transposase"
     Typing          complement(2..249)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.414"
                     /coverage="86.0"
                     /evalue="4.98e-112"
     Typing          complement(2640..2746)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.578"
                     /coverage="93.0"
                     /evalue="3.4500000000000004e-37"
ORIGIN
        1 tcgtgcatac agtccagctt ggagcgaact gcctacccgg aactgagtgt caggcgtgga
       61 atgagataaa cgcggccata acagcggaat gacaccggta aaccgaaagg caggaacagg
      121 agagcgcacg agggagccac cagggggaaa cgcctggtat ctttaagtcc tgtcgggttt
      181 cgccaccact gatttgagcg tcagatttcg tgatgcttgt caggggggcg gagcctatgg
      241 aaaaacggct tctccgtggc cttcttgctt ccctgttaag cttcttcctg gaagatgcca
      301 ggaaatttcc gccccgccag taagccggta ccgctcgccg cagccgaacg accgagcgga
      361 gcgagtcagt gagcgaggaa gcggaatatc tccgggctta tctttggcac cgtacgcgcc
      421 atagctgcat tttttaatac gatgcaggat agggcaaacg ccgcaaaatg acgtcatccg
      481 acatcattcc gccgcgttcg tccagtgacc tacagtcggc tctggggtgt cggggctgtg
      541 ccctgaccag gcgttttgga gtatcgccac cgtggtggcg gtgctacaaa acatatcctg
      601 tcccttcctt ggcatctctg aagtttagcc agtatacact ccgctagcgc tacgtgactg
      661 gttcagggct gcgccccgac acccgctaaa agcactgacg cgcctgcggc ttgcccaacc
      721 ccgcgccgtc cgggaaagaa tttcccgatc gacccgacgt ttctgtttac ctgtgatgtt
      781 aacgtttgga tctttttccc gggtttacct attttcttct aatgaagcgt tcacagctga
      841 cgttaataga tgggtgcttt catgtttggt ttttcaccag gagaacttat gaacctttgc
      901 cccgatgaac gtctgctctt tgtgcggatg atttccgcta tgcttcgccg ttcgggcggt
      961 gatgcgggtg ctgttatgtt tgaggcgtat cgccatattg tgtccgatac caatcaagct
     1021 cgtcgtgcct gcatgctcga cctgctcgaa agcgtcaggc atgactatgt acacggtgga
     1081 tatacatagt tgccctggat acgcttttcg tctaagtgag cgttcttttc gtctctttat
     1141 tcgccgtcct gtataccgaa gcgtgcgctc agcttctgat aaagcgcttc tgcctgttcg
     1201 tgcattcgct cacagtcggc tgcctcgtca tcaagatcga gcacgtcgag tttttcgagc
     1261 agcagcagcg actgcgcccg gataaatttt gccatgttca gtgcggctga ttcctgtttt
     1321 gtcatacggc tttttcccgg ttttatggtg atcgcagact gaaatcttac ttcattcact
     1381 tgagtgcata gccatgcagg tacgcagaaa tcatcagcgc gtttctgagc ggttttcagg
     1441 gggtaagatg tgttcttttg caggtgaggt cgtagaaacg ccctgagagc ctctcaggcg
     1501 gtgcacgcaa cggatgttat gttcaatctg gcggtgcggc atagttatca tcgcacctac
     1561 agaccgcttg ttgtattcag aacaatattt atttgtataa tttgtatttt gttgtattat
     1621 ttcttcaaat tagagcggtg gggtaataat aatatgaatg gtatgtctga cgtaagacta
     1681 aagaaatcaa ctattgagag cctaaaagag tacgtgaatg actttggcat gacggttgat
     1741 gatgttgtcc tgaacttaat tgaagagaat aattcattaa aatcgttatt aggtcagggc
     1801 ttttctttgc ctggtggaga taaggacaca cattccttca aggattacgt gattcataag
     1861 cttccaaaag gaaagatctt ggttaccaaa gacgggctta aagttagcaa catgaagaag
     1921 gtattgatcg aggcagggag cgctgtaggg atggatgata aagagctaaa ccctgacttt
     1981 acgacctatg aaataggccg ttttctcttc aaacatcttc agggataaag gtgtctacca
     2041 gttcgtggcc gggattttag gttcaattca gctagttccc ggacagaaaa aaagccaccg
     2101 tgtaggtggc ttttttattc ctgctttagg caaagcatta ttgatagcat ttgcaagcaa
     2161 accgttagcg acttctgctg aatgcttctg ggcggattca agttcgaagt gcaacgctaa
     2221 gccgcctgtc ttagctcagc aaagaccact gaaggttgcc ggaatccaag acatttccgt
     2281 ggcctgctat tcagtgctct ctggtacttg cggagctccc ctgtgtgata agtcaggtgt
     2341 ggaattttta cgtataaggc cccgctaggc ggaaaccaat actgaagcca aatcactggt
     2401 aaacagccgg atcttcttgt gatcctttta ctctcgtcgt aatctcatgt cctgtaaaca
     2461 aaaaaaccac cgctaccaac ggtggttcgt ttgccggaat caagagctac caactctttc
     2521 ttccgaaggt aactggcttt cacggagcgc agataccaaa actgtccttc cagtgtagcc
     2581 gcagtcaggc cgccacttca agaactctgt agaagcactc tactaccctg ctccgtgaat
     2641 cctcttacca atggctgctg ccaatggcgt taagtcgtgt ctttccgggt tggactcaag
     2701 acgatagtta ccggacaagg cgcagcggtc ggactgaacg gggggt
//
