LOCUS       NZ_CP065794             2353 bp    DNA     circular CON 16-FEB-2024
DEFINITION  Mammaliicoccus sciuri strain GDK8D6P plasmid pK8D6P-lnuA, complete
            sequence.
ACCESSION   NZ_CP065794
VERSION     NZ_CP065794.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17022249
            Assembly: GCF_016067215.1
KEYWORDS    RefSeq.
SOURCE      Mammaliicoccus sciuri
  ORGANISM  Mammaliicoccus sciuri
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Mammaliicoccus.
REFERENCE   1  (bases 1 to 2353)
  AUTHORS   Chen,L.
  TITLE     Co-location of cfr and fosD genes the multiresistance plasmids in
            one Staphylococcus sciuri isolate from duck
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2353)
  AUTHORS   Chen,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (07-DEC-2020) College of Veterinary Medicine, South China
            Agricultural University, Wushan, Guangzhou, Guangdong 510642, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 20-NOV-2020
            Assembly Method                   :: HGAP v. 4.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 1006.0x
            Sequencing Technology             :: PacBio RSII
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/16/2024 02:57:31
            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)                     :: 2,825
            CDSs (total)                      :: 2,745
            Genes (coding)                    :: 2,716
            CDSs (with protein)               :: 2,716
            Genes (RNA)                       :: 80
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 57
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 29
            CDSs (without protein)            :: 29
            Pseudo Genes (ambiguous residues) :: 0 of 29
            Pseudo Genes (frameshifted)       :: 8 of 29
            Pseudo Genes (incomplete)         :: 19 of 29
            Pseudo Genes (internal stop)      :: 6 of 29
            Pseudo Genes (multiple problems)  :: 4 of 29
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP065794.1.
            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..2353
                     /organism="Mammaliicoccus sciuri"
                     /mol_type="genomic DNA"
                     /strain="GDK8D6P"
                     /isolation_source="viscera"
                     /host="duck"
                     /db_xref="taxon:1296"
                     /plasmid="pK8D6P-lnuA"
                     /geo_loc_name="China:Guangzhou"
                     /collection_date="2018-05-31"
     gene            complement(join(1999..2353,1..650))
                     /locus_tag="I7827_RS14080"
                     /old_locus_tag="I7827_14080"
     CDS             complement(join(1999..2353,1..650))
                     /locus_tag="I7827_RS14080"
                     /old_locus_tag="I7827_14080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020368559.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_020368559.1"
                     /translation="MQYNTTRYVDENQDNETLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAFNVKQCGNVLEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVI
                     EEVVKEKPKARWLFLTLSARNAIDGEHLEQSLKHMSKAFNKLKMYTKVKKNLIGFLRST
                     EVTVNKNDGSYNQHMHVLLCVENSYFKNKANYITQEEWVTLWQKALQVNYRPVANIKAI
                     KPNQKGDKDIRAAIKETSKYSVKSSDFLTDDDEKNQEIVNDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDAEDGNLINTSDEDKTTDEEEKAHSITAIWNFEKQNYYLKDLKR"
                     /name="protein rep"
     gene            868..1353
                     /gene="lnu(A)"
                     /locus_tag="I7827_RS14085"
                     /old_locus_tag="I7827_14085"
     ARG             869..1350
                     /name="lnu(A)"
                     /gene="lnu(A)"
                     /gene_name="lincosamide nucleotidyltransferase Lnu(A)"
                     /tool="amrfinderplus"
                     /drug_class="LINCOSAMIDE"
                     /identity="100.0"
                     /coverage="100.0"
     ARG             869..1353
                     /name="lnuA"
                     /gene="lnuA"
                     /gene_name="lincosamide nucleotidyltransferase (LNU)"
                     /tool="rgi"
                     /drug_class="lincosamide antibiotic"
                     /identity="99.38"
                     /coverage="100.0"
     Typing          complement(2..650)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.577"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(2000..2353)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.465"
                     /coverage="100.0"
                     /evalue="1.51e-170"
ORIGIN
        1 gctactggtc gataatttac ttgtaatgct ttttgccata aagtaaccca ttcttcttga
       61 gttatataat tagctttatt cttaaaatag ctattttcaa cacacaataa aacgtgcata
      121 tgttgattat aactaccgtc atttttatta accgttactt cggttgaacg taaaaatccg
      181 attaaattct ttttaacttt tgtatacatt tttaatttat taaaagcctt agacatatgc
      241 tttaaacttt gttctaaatg ttcaccgtct attgcatttc gtgctgatag cgtaagaaat
      301 aaccaacgtg cttttggctt ttctttaacc acttcttcaa tcactttttg agcttgataa
      361 ctatttttca tagcacgcct ccaattacaa actgggcata attttgattt acaaaaccat
      421 gttttatgta atttcaaata accttcatca gttggcttga actctaagac gttaccacat
      481 tgttttacgt taaaagcctt ttttattttt aaaatttcta gtatatctgc ataacttaca
      541 ttatcaattt tcttctctct ccatgggcgt tgtttcccac ttttcgtcat atcttttaat
      601 gtttcattat cttgattttc gtctacatat ctagtagtat tatattgcat ataaaaagcc
      661 tccagttttg attttgattc gacaccttaa tcatataact ggggtttttt catgtcaaat
      721 tttctttcaa caacaaaaac aaccaaaaat actgttatat caacattcaa atgacttttt
      781 atatctttga gttatttcta tatagtatca agacaagaag aaactcgttt tcaactcgtt
      841 tcaaattccc aagttaggag ggataaaatg aaaaataata atgtaacaga aaaagaatta
      901 ttttatattt tagatttatt tgaacacatg aaagtaactt attggttaga tggtggctgg
      961 ggggtagatg tattaactgg aaaacaacaa agagaacaca gagatataga tatagatttt
     1021 gacgctcaac acactcaaaa agttatacaa aaattagaag atataggata caaaatagaa
     1081 gttgattgga tgccttcacg tatggaactt aagcatgaag aatatgggta tttagatatt
     1141 catcctataa atctaaatga tgatggatca attacccaag caaacccaga aggtggtaat
     1201 tatgttttcc aaaatgactg gttttcagaa actaattaca aagatcgaaa aataccatgt
     1261 atttcaaaag aagctcaact tctttttcat tctggttatg atttaacaga aacagaccat
     1321 tttgatataa aaaatttaaa atcaataaca taattgcttt attccaattg ctttattgac
     1381 gttgagcctc ggaaccctta acaatcccaa aacttgtcga atggtcggct taatagctca
     1441 cgctatgccg acattcgtct gcaagtttag ttaagggttc ttctcaacat caataaattt
     1501 tctcggcata aatgcgtgtt cttgctataa tatatcttag aaaaatagat taaatagctt
     1561 atcgactatt tgcataaatg ctattacaac attcagtgtc accagcacta atttgtaata
     1621 gcatttttta tttttaaatt ttcaaagata ccaaatttta aataccttta ttttgaattc
     1681 taagggggca ttttaaagat ttaagggtaa atcatatagt tttataccta aaaacctaca
     1741 caagctttta aaacgcaaat atgagccaaa taaatatatt ctaattccac aaacaaaaat
     1801 ttgagcaaaa ccagtgacta ttttttagac actgcccagt tacatgcaaa ttaaaaattt
     1861 ggcatgtact ggcaaaaaaa ttcagacact gcccatttac gcacaaaatt atttttcgcg
     1921 taaaaactgg gtaaccatgc tggttaatcc tatagttccc gcaggggcaa aaaacataaa
     1981 aaaacgctag ctttttagct aacgtttcaa atcttttaag taataatttt gtttttcaaa
     2041 attccaaatt gcagtaattg aatgtgcttt ttcttcttcg tctgttgttt tatcttcgtc
     2101 acttgtatta attaaattgc catcttcggc atcatctaaa tttaaaattt tatgtttttg
     2161 tttaagcaaa ccaccataac tcaacatacg ttttcgatat aaaccttttt ctaaatcatt
     2221 tacaatttct tgattttttt catcatcatc agttaaaaaa tcagatgact taaccgaata
     2281 tttcgaggtt tctttgatag ctgctcgaat atctttatcg cctttttgat ttggtttgat
     2341 cgctttaata ttt
//
