LOCUS       NZ_CP056384             2746 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Citrobacter sp. RHBSTW-00628 plasmid pRHBSTW-00628_4, complete
            sequence.
ACCESSION   NZ_CP056384
VERSION     NZ_CP056384.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148667
            Assembly: GCF_013746415.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter sp. RHBSTW-00628
  ORGANISM  Citrobacter sp. RHBSTW-00628
            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                     :: WTP3 T2-00628
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 83.1954146362246x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:10:42
            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)                     :: 5,258
            CDSs (total)                      :: 5,140
            Genes (coding)                    :: 4,965
            CDSs (with protein)               :: 4,965
            Genes (RNA)                       :: 118
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 82
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 175
            CDSs (without protein)            :: 175
            Pseudo Genes (ambiguous residues) :: 0 of 175
            Pseudo Genes (frameshifted)       :: 40 of 175
            Pseudo Genes (incomplete)         :: 135 of 175
            Pseudo Genes (internal stop)      :: 32 of 175
            Pseudo Genes (multiple problems)  :: 28 of 175
            Pseudo Genes (short protein)      :: 1 of 175
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056384.1.
            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-00628"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00628"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:2742658"
                     /plasmid="pRHBSTW-00628_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(2668..2746,1..53))
                     /locus_tag="HV250_RS26105"
                     /old_locus_tag="HV250_26115"
     CDS             complement(join(2668..2746,1..53))
                     /locus_tag="HV250_RS26105"
                     /old_locus_tag="HV250_26115"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001333247.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_052684121.1"
                     /translation="MHEPPVQSDRCALSGNYRLESNPERHDLTPLAAAIGKRIHGAG"
                     /name="hypothetical protein"
     gene            907..1134
                     /locus_tag="HV250_RS26110"
                     /old_locus_tag="HV250_26120"
     CDS             907..1134
                     /locus_tag="HV250_RS26110"
                     /old_locus_tag="HV250_26120"
                     /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_223229632.1"
                     /translation="MFGFSPGELMNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRH
                     IVSDTNQARRSYMLDLLESVRHDYVHDGYT"
                     /name="hypothetical protein"
     gene            complement(1182..1370)
                     /locus_tag="HV250_RS26115"
                     /old_locus_tag="HV250_26125"
     CDS             complement(1182..1370)
                     /locus_tag="HV250_RS26115"
                     /old_locus_tag="HV250_26125"
                     /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            1564..2073
                     /locus_tag="HV250_RS26120"
                     /old_locus_tag="HV250_26130"
     CDS             1564..2073
                     /locus_tag="HV250_RS26120"
                     /old_locus_tag="HV250_26130"
                     /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_045270081.1"
                     /translation="MFNLAVQHSYHRTYRPLVVFRTIFICIICILLYYFFKLERWGNNN
                     MNGMSDVRLKKSTIESLKEYVNDFGMTVDDVVLNLIEENNSLKSLLGQGFSLPGGDKDT
                     HSFKDYVIHKLPKGKILVTKDGLKVSNMKKVLIEAGSAVGMDDKELNPDFTTYEIGRFL
                     FKHLQG"
                     /name="hypothetical protein"
     gene            complement(2262..>2363)
                     /locus_tag="HV250_RS26125"
                     /old_locus_tag="HV250_26135"
                     /pseudo=""
     CDS             complement(2262..>2363)
                     /locus_tag="HV250_RS26125"
                     /old_locus_tag="HV250_26135"
                     /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..438)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.761"
                     /coverage="83.0"
                     /evalue="0.0"
ORIGIN
        1 cgatagttac cggacaaggc gcagcggtcg gactgaacgg ggggttcgtg catacagtcc
       61 agcttggagc gaactgccta cccggaactg agtgtcaggc gtggaatgag ataaacgcgg
      121 ccataacagc ggaatgacac cggtaaaccg aaaggcagga acaggagagc gcacgaggga
      181 gccaccaggg ggaaacgcct ggtatcttta agtcctgtcg ggtttcgcca ccactgattt
      241 gagcgtcaga tttcgtgatg cttgtcaggg gggcggagcc tatggaaaaa cggcttcgcc
      301 gtggccttct tgcttccctg ttaagcttct tcctggaaga tgccaggaaa tttccgcccc
      361 gccagtaagc cggtaccgct cgccgcagcc gaacgaccga gcggagcgag tcagtgagcg
      421 aggaagcgga atatctccgg gcttatcttt ggcaccgtac gcgccatagc tgcatttttt
      481 aatacgatgc aggatagggc aaacgccgca aaatgacgtc atccgacatc attccgccgc
      541 gttcgtccag tgacctacag tcggctctgg ggtgtcgggg ctgtgccctg accaggcgtt
      601 ttggagtatc gccaccgtgg tggcggtgct acaaaacata tcctgtccct tccttggcat
      661 ctctgaagtt tagccagtat acactccgct agcgctacgt gactggttca gggctgcgcc
      721 ccgacacccg ctaaaagcac tgacgcgcct gcggcttgcc caaccccgcg ccgtccggga
      781 aagaatttcc cgatcgaccc gacgtttctg tttacctgtg atgttaacgt ttggatcttt
      841 ttcccgggtt tacctatttt cttctaatga agcgttcaca gctgacgtta atagatgggt
      901 gctttcatgt ttggtttttc accaggagaa cttatgaacc tttgccccga tgaacgtctg
      961 ctctttgtgc ggatgatttc cgctatgctt cgccgttcgg gcggtgatgc gggtgctgtt
     1021 atgtttgagg cgtatcgcca tattgtgtcc gataccaatc aagctcgtcg ttcctacatg
     1081 ctcgacctgc tcgaaagcgt caggcatgac tatgtacacg atggatatac atagttgccc
     1141 tggatacgct tttcgtctaa gtgagcgttc ttttcgtctc tttattcgcc gtcctgtata
     1201 ccgaagcgtg cgctcagctt ctgataaagc gcttctgcct gttcgtgcat tcgctcacag
     1261 tcggctgcct cgtcatcaag atcgagcacg tcgagttttt cgagcagcag cagcgactgc
     1321 gcccggataa attttgccat gttcagtgcg gctgattcct gttttgtcat acggcttttt
     1381 cccggtttta tggtgatcgc agactgaaat cttacttcat tcacttgagt gcatagccat
     1441 gcaggtacgc agaaatcatc agcgcgtttc tgagcggttt tcagggggta agatgtgttc
     1501 ttttgcaggt gaggtcgtag aaacgccctg agagcctctc aggcggtgca cgcaacggat
     1561 gttatgttca atctggcggt gcagcatagt tatcatcgca cctacagacc gcttgttgta
     1621 ttcagaacaa tatttatttg tataatttgt attttgttgt attatttctt caaattagag
     1681 cggtggggta ataataatat gaatggtatg tctgacgtaa gactaaagaa atcaactatt
     1741 gagagcctaa aagagtacgt gaatgacttt ggcatgacgg ttgatgatgt tgtcctgaac
     1801 ttaattgaag agaataattc attaaaatcg ttattaggtc agggcttttc tttgcctggt
     1861 ggagataagg acacacattc cttcaaggat tacgtgattc ataagcttcc aaaaggaaag
     1921 atcttggtta ccaaagacgg gcttaaagtt agcaacatga agaaggtatt gatcgaggca
     1981 gggagcgctg tagggatgga tgataaagag ctaaaccctg actttacgac ctatgaaata
     2041 ggccgttttc tcttcaaaca tcttcaggga taaaggtgtc taccagttcg tggccgggat
     2101 tttaggttca attcagctag ttcccggaca gaaaaaaagc caccgtgtag gtggcttttt
     2161 tattcctgct ttaggcaaag cattattgat agcatttgca agcaaaccgt tagcgacttc
     2221 tgctgaatgc ttctgggcgg attcaagttc gaagtgcaac gctaagccgc ctgtcttagc
     2281 tcagcaaaga ccactgaagg ttgccggaat ccaagacatt tccgtggcct gctattcagt
     2341 gctctctggt acttgcggag ctcccctgtg tgataagtca ggtgtggaat ttttacgtat
     2401 aaggccccgc taggcggaaa ccaatactga agccaaatca ctggtaaaca gccggatctt
     2461 cttgtgatcc ttttactctc gtcgtaatct catgtcctgt aaacaaaaaa accaccgcta
     2521 ccaacggtgg ttcgtttgcc ggaatcaaga gctaccaact ctttcttccg aaggtaactg
     2581 gctttcacgg agcgcagata ccaaaactgt ccttccagtg tagccgcagt caggccgcca
     2641 cttcaagaac tctgtagaag cactctacta ccctgctccg tgaatcctct taccaatggc
     2701 tgctgccaat ggcgttaagt cgtgtctttc cgggttggac tcaaga
//
