LOCUS       NZ_CP011603             1916 bp    DNA     circular CON 31-MAR-2024
DEFINITION  Citrobacter freundii strain CAV1321 plasmid pCAV1321-1916, complete
            sequence.
ACCESSION   NZ_CP011603
VERSION     NZ_CP011603.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN03733741
            Assembly: GCF_001022155.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter freundii
  ORGANISM  Citrobacter freundii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 1916)
  AUTHORS   Sheppard,A.E., Stoesser,N., Wilson,D., Sebra,R., Kasarskis,A.,
            Anson,L., Giess,A., Pankhurst,L., Vaughan,A., Grim,C.J., Cox,H.,
            Yeh,A., Sifri,C.D., Walker,S., Peto,T.E., Crook,D.W. and
            Mathers,A.J.
  TITLE     Rapid spread of a carbapenem resistance gene driven by multiple
            levels of genetic mobility
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1916)
  AUTHORS   Sheppard,A.E., Stoesser,N., Wilson,D., Sebra,R., Kasarskis,A.,
            Anson,L., Giess,A., Pankhurst,L., Vaughan,A., Grim,C.J., Cox,H.,
            Yeh,A., Sifri,C.D., Walker,S., Peto,T.E., Crook,D.W. and
            Mathers,A.J.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-JUN-2015) University of Oxford, John Radcliffe
            Hospital, Oxford OX39DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP3 v. 2.3.0
            Genome Coverage                   :: 115X
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_001022155.1-RS_2024_03_31
            Annotation Date                   :: 03/31/2024 02:09:54
            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)                     :: 5,394
            CDSs (total)                      :: 5,273
            Genes (coding)                    :: 5,156
            CDSs (with protein)               :: 5,156
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 117
            CDSs (without protein)            :: 117
            Pseudo Genes (ambiguous residues) :: 0 of 117
            Pseudo Genes (frameshifted)       :: 29 of 117
            Pseudo Genes (incomplete)         :: 83 of 117
            Pseudo Genes (internal stop)      :: 19 of 117
            Pseudo Genes (multiple problems)  :: 14 of 117
            Pseudo Genes (short protein)      :: 1 of 117
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP011603.1.
            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..1916
                     /organism="Citrobacter freundii"
                     /mol_type="genomic DNA"
                     /strain="CAV1321"
                     /isolation_source="Urine/Genitourinary"
                     /host="Homo sapiens"
                     /db_xref="taxon:546"
                     /plasmid="pCAV1321-1916"
                     /geo_loc_name="USA:Virginia"
                     /lat_lon="38.14 N 78.45 W"
                     /collection_date="2010-11"
                     /collected_by="Clinical Microbiology University of Virginia
                     Health System"
     gene            join(1708..1916,1..28)
                     /locus_tag="AB180_RS00005"
                     /old_locus_tag="AB180_00005"
     CDS             join(1708..1916,1..28)
                     /locus_tag="AB180_RS00005"
                     /old_locus_tag="AB180_00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001676031.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_031942344.1"
                     /translation="MTRLTNLTPAEKQFLDDAVAAAERASGKKLNQPNRHIVLNRARAQ
                     IESQRHADRQRALREEERQQAEFTWSRPRSPRR"
                     /name="hypothetical protein"
     gene            complement(284..586)
                     /locus_tag="AB180_RS00010"
                     /old_locus_tag="AB180_00010"
     CDS             complement(284..586)
                     /locus_tag="AB180_RS00010"
                     /old_locus_tag="AB180_00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005161566.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="TM2 domain-containing protein"
                     /protein_id="WP_031942343.1"
                     /translation="MSSMVYCRGCGKEIHETAKSCPHCGATNASSGSGEKSRIAAALLA
                     FFLGGFGAHKFYLGKIGQGFLYLIFCWTFIPAIIAFIEFIIYLCDSDEKFARKYG"
                     /name="TM2 domain-containing protein"
     gene            complement(894..1007)
                     /locus_tag="AB180_RS26545"
     CDS             complement(894..1007)
                     /locus_tag="AB180_RS26545"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032634168.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHAKAPLAAATGN"
                     /name="hypothetical protein"
     Typing          1369..1542
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.5600000000000002e-86"
     Typing          complement(899..1383)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.648"
                     /coverage="80.0"
                     /evalue="0.0"
ORIGIN
        1 gtcacgtccg cgatcgccgc gccggtgagt ggctgttatg aggtttctgc tgcagttttg
       61 tgatgaaact gcaggcaagg catttccgtg catagccatg cagacgcgca gaaatcatca
      121 ggaacgtttt tcggggtttt ccccggggaa aggtgccgga aatcggcatg aggccgcaga
      181 aacgcgctga gagcgtctta ggcggtaccg ataagggatg ttatggtaaa tgtgcctcac
      241 agactggtac aaaaaaagcc ccgcagggct tttttgctat gagttagcca tattttcttg
      301 cgaatttttc atcggaatcg catagataaa taataaactc aataaacgcg atgatcgcgg
      361 gtatgaatgt ccagcaaaaa attagataca ggaatccctg tcctatttta cctaagtaaa
      421 atttatgtgc gccaaatcca ccaaggaaga atgctaatag cgcggctgcg attctacttt
      481 tttcacctga acctgaagag gcgtttgtgg ctccgcagtg tgggcatgac tttgctgttt
      541 cgtgtatttc cttgccgcat cctcggcagt aaaccattga actcattttt tatcctcgag
      601 cttattttta gttgggatgc ataatatcca atgttttata acgatatgca tcctatatgc
      661 tcgggtggga tagattccat tatggtgaag gatcttcttg agatcctttc tgtagcgtcg
      721 taatctcttg ctctggaaac gaaaaaaccg ccctgcaagg cggtttttcg aaggttctct
      781 gagctactaa ctctttgaac cgaggtaact ggcttggagg agcgcagtca ccaaaacttg
      841 tcctttcagt ttagccttaa ccggcgcata acttcaagac taactcctct aaatcagtta
      901 ccagtggctg ctgccagtgg cgcttttgca tgtctttccg ggttggactc aagacgatag
      961 ttaccggata aggcgcagca gtcggactga acggggggtt cgtgcataca gtccagcttg
     1021 gagcgaactg cctacccgga actgagtgtc aggcgtggaa tgagaaaccg cggccataac
     1081 agcggaatga caccggtaaa ccgaaaggca ggaacaggag agcgcacgag ggagctacca
     1141 gggggaaacc cttgggatct ttatagtcct gtcgggtttc gccgccactg atttgagcgt
     1201 cagatttcgt gatgcttgtc aggggggcgg agcctatgga aaaacggctt cgccgcagcc
     1261 tcatcgtttc cctgttaagt tccttcctgg catccaccag gaaatttcca cctcacccgt
     1321 aagccggtac cgctcgccgc agccgaacga ccgagcgcag cgagtcagtg agcgaggaag
     1381 cggcacatct cccgttacta catgttctgc tgacgcgccg gtgccgcctt tttctcctgc
     1441 tacatgaagc acttcactga catccgcatc cgtgccaaca tattaagcca gtatacactc
     1501 cgctagcgct acgtgactgg ttcagggctg cgccccgaaa cccgccagga ccactggcgc
     1561 gcctgacggc ttgcccaacg cttcacggca cctgattaaa atccgctccc gttcaccgtt
     1621 tctgatggtt ctgacattcc gccgctgctt cattgcttcc accttgtctg gcagactggc
     1681 cagcgtgatg ctgaacagga gacctacatg acgcgactga ccaatctgac gccggcagag
     1741 aagcaatttc ttgatgatgc tgttgcagct gcagagcgtg cttccggcaa gaaactcaac
     1801 cagccgaacc gacatatcgt gctcaaccgg gcaagagcgc agattgagtc gcagcggcac
     1861 gccgaccggc agcgcgctct acgtgaggaa gaacggcagc aggccgaatt tacctg
//
