LOCUS       NZ_CP071689             3373 bp    DNA     circular CON 28-MAY-2024
DEFINITION  Salmonella sp. SAL-007 plasmid unnamed3, complete sequence.
ACCESSION   NZ_CP071689
VERSION     NZ_CP071689.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18175052
            Assembly: GCF_017372375.1
KEYWORDS    RefSeq.
SOURCE      Salmonella sp. SAL-007
  ORGANISM  Salmonella sp. SAL-007
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3373)
  AUTHORS   zhao,w. and li,r.
  TITLE     salmonella SAL-007-Chromosome sequence
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3373)
  AUTHORS   zhao,w. and li,r.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-MAR-2021) College of Biological and Pharmaceutical
            Engineering, Wuhan Polytechnic University, Xuefu South Road,
            Evergreen Garden, Dongxihu District, WuHan 430000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. December-2020
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Oxford Nanopore PromethION; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_017372375.1-RS_2024_05_28
            Annotation Date                   :: 05/28/2024 03:47:57
            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)                     :: 4,676
            CDSs (total)                      :: 4,555
            Genes (coding)                    :: 4,375
            CDSs (with protein)               :: 4,375
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 180
            CDSs (without protein)            :: 180
            Pseudo Genes (ambiguous residues) :: 0 of 180
            Pseudo Genes (frameshifted)       :: 71 of 180
            Pseudo Genes (incomplete)         :: 121 of 180
            Pseudo Genes (internal stop)      :: 40 of 180
            Pseudo Genes (multiple problems)  :: 45 of 180
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP071689.1.
            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..3373
                     /organism="Salmonella sp. SAL-007"
                     /mol_type="genomic DNA"
                     /strain="SAL-007"
                     /host="Homo sapiens"
                     /db_xref="taxon:2816952"
                     /plasmid="unnamed3"
                     /geo_loc_name="China:WuHan"
                     /collection_date="2020-11"
     gene            complement(462..695)
                     /locus_tag="J1G46_RS23240"
                     /old_locus_tag="J1G46_23240"
     CDS             complement(462..695)
                     /locus_tag="J1G46_RS23240"
                     /old_locus_tag="J1G46_23240"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137389.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137389.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHEVTQRNNA
                     ILNERVVILSQQVQRLAGQVDRLSRLFIANNS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(702..1262)
                     /locus_tag="J1G46_RS23245"
                     /old_locus_tag="J1G46_23245"
     CDS             complement(702..1262)
                     /locus_tag="J1G46_RS23245"
                     /old_locus_tag="J1G46_23245"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_000067487.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKKQLDTLSTTVSMQFSTTEAELSRQQKKLLWRVIKGRILFPALTA
                     LSVTGGIFLGCWGLMEWQESKIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            complement(<1294..1950)
                     /locus_tag="J1G46_RS23580"
                     /old_locus_tag="J1G46_23250"
                     /pseudo=""
     CDS             complement(<1294..1950)
                     /locus_tag="J1G46_RS23580"
                     /old_locus_tag="J1G46_23250"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(1940..2263)
                     /locus_tag="J1G46_RS23255"
                     /old_locus_tag="J1G46_23255"
     CDS             complement(1940..2263)
                     /locus_tag="J1G46_RS23255"
                     /old_locus_tag="J1G46_23255"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_001696562.1"
                     /translation="MLTIRVTDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     APPLLRHLAAIGNNLNQTARKVNSGQWSSIDRVHVVAALMAIEGELRQLRQAVREQGVR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2327..2518
                     /locus_tag="J1G46_RS23260"
                     /old_locus_tag="J1G46_23260"
     CDS             2327..2518
                     /locus_tag="J1G46_RS23260"
                     /old_locus_tag="J1G46_23260"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /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_062914769.1"
                     /translation="MTKQEKTALNMARFIRNQTLTLLEKLNDLDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(2600..2680)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="86.585"
                     /coverage="93.0"
                     /evalue="4.04e-16"
     Typing          complement(380..1950)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.628"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tgttgaaaaa ctcttgaaga atacagaagg ctcatgcaaa ctgaatgaac tggtttctgt
       61 tgtggatctc aacagtttcc acaggaacat tgaggaggtc agagacctca atgaacccga
      121 aacagctcgc cttcctggcg agctgttttc gttctacgcc caccgacgaa agatcgcaag
      181 tgcaataacg agatttttca cgtctttacg ctcaaaaagt aaaaaaacca tgttttcccc
      241 tggctgaatc cccaaaaacg cgtgaaatgc gttttcagga tgttgcatag ctatgcacaa
      301 atacggcaca cgatttgttt cgctcgcccc agccgtcgaa cgggtcaaaa tggcaagatt
      361 tcgtcacttc tccggtcaca tctccattga tggcccactc cgaacccgtg ccgcgcgttc
      421 ctgtacctca tgtctgtacc gggcacgctc ctgttcatcc cttagctgtt gttcgcgata
      481 aataaccgac tcaagcgatc cacttgcccg gctaatctct gcacctgctg actcaatatc
      541 acgacgcgct cgttcagtat cgcgttgttc cgttgcgtaa cctcgtgcat cttctgcaat
      601 tccgcgaagg cgctctccca ctcgttcagc cgccgcatat agtcctgttg caaatgctct
      661 aaggcgttca gcaaatgccc ttccagttcc gtcatactcg tttactccct gaccagcctc
      721 acggcgttct tgtcgcccac cgtccaggtg ttttcccctt tcaccccgtc cggcaacacc
      781 agaaatttcc cgttctcgcc attgacgaac gtcacccccc aggtttttgc ctcgagtttc
      841 gccagcgtgt tttcctgctc tctgatagtc aggatatttt tcgcaatctt gctttcctgc
      901 cactccatca gcccccagca ccccaggaaa atcccgcccg tgacgctgag cgcggtcagc
      961 gccggaaaca gtatccgccc tttgatcacc cgccagagca gttttttctg ctgccgggac
     1021 agttcggcct ctgtggtgct gaactgcatg ctcacggtgg tgctcagcgt atccagttgc
     1081 tttttcacgg atgttgtatg ttcgctgata gcgtctctga ttttctgcct gtttaagctc
     1141 aatgccttgt ctacagactc ttcgagcttc ctgaactcgc tgttcagcat gttctcggta
     1201 gaagcggctc gctctttcag tttcttctcg aagtctgttc ccatttgtaa aagattgctc
     1261 atacagcgcc ccctttagcc tgagattccg ccccccctcc gggtcggcaa tactgatgct
     1321 gcttttggtt gtcctcacca cctcaaaacc tgccgctgta agcgcctctg tgacatcctg
     1381 acgcgttttt attgctccgg catggtaaag agcctcaaga ccccgtgtaa tcgcttctgc
     1441 ggcctcctgt ttcgcttttg gcagattatt tggcgtgaca agcgtccgtc tgttctccgg
     1501 tgcgttcggg tcacgcagcc cgtaatgatg attaaccagc gtctgccagg catttatcct
     1561 cggcctgtcc gcacggtcgt agtacggctg gaggcgctta ccgctctgta gctccatgtt
     1621 cgggatgaca aaattcagtt cgagccgccc cttatcctgg tgttccaccc agagaatgct
     1681 gtactggtct ttttcgagac cgggcataag aacacgctca aagctcgtca tcactctttc
     1741 gcgttcaccc ggtggtagct ccttctccgc gaacgacaga acgcctgacg tgtatttctt
     1801 cgaaaatggc gtggaatcaa tgagttcccg cacttcttcc gggttacccc ggagcaccgt
     1861 tgcgccttcg cggttacgct cccgccccag caggtaatcg accgggccac ttccaccgcc
     1921 tttccccctg gcatgaaatt taactatcat cccgtacccc ctgttccctg acagcctgcc
     1981 gcaactggcg caattcaccc tcgatggcca tcagtgcggc caccacatga acccggtcaa
     2041 tcgaagacca ctggccgctg ttcaccttcc gggctgtctg gttcaggttg ttcccgatgg
     2101 cagccagatg ccgcagcaat ggcggtgcca gtgtcggcag ttttcctgtg cgtgcaaccg
     2161 gctcccccag acagacccgc cgcatccatt ccgccagtcg tttaccctcg cagcgttcca
     2221 gtaaccgggc gtgctcctca tcggtaaccc gtatcgtgag catcttctcg cgtttcatcg
     2281 gtatcattcc ccctaacaaa tcccccatac aaggagcctt aagaccatga ccaaacagga
     2341 aaaaacagcc cttaacatgg ctcgctttat cagaaaccag acgctaaccc tgctggaaaa
     2401 actcaacgat ctggacgcgg acgaacaggc agacatctgc gaatcacttc acgaccacgc
     2461 cgacgaactc taccgcagtt gcctcgcacg cttcggcgat gacggtgaaa gcaactgaaa
     2521 catgcagctc ccggagacgt tcacagcttg cctgtgagcg gatgccggga gcagacaagc
     2581 ccgccagggc gcgtcagtgc gggtgtcggg gcgcagccct gacccagttc acagagcgat
     2641 agcgatgtgt atactggctt tcctcatttt gcatcggtgc agagtggatg ggaagtgcac
     2701 catgtcagga gtaaaaagcc gcacagatgc gtaaaaacag cgcgcccgat aaacaacaca
     2761 cacgcggaca ctggcacagg cgcgtaagtg cacaatgctt gcctctgtga ctcttccgct
     2821 tcctcgccca ctcgctcact acgttcggtc gctggggctg cggcgagcgg tgggatcact
     2881 ctcgttgtga tgcagatccg tttttttttt tgcactggag ttatcaggag tagcggtgca
     2941 catgggatcg tgcgatatgc tggatggtgg aaggtcggag ggaacggcaa caactcaccc
     3001 ctcccagtga agggacgggt agtttgccgc tctcgatatg ccggacggag ccaaggccat
     3061 cgatcacggg gcgcgtcagt ggaagaaccc gcgcctgcgt gacgtatgcg tcttcgccgc
     3121 accatctcac ccgtcacgcc accacatacc gggaactgcc gccaaggtct aactcaacca
     3181 atctagccgc gctacatacg gtttttgtgg caactcatca ggtgtccgct gtcgatgaaa
     3241 ctctctgcgc cggtagcgga actctcacgc gtgcggtcgc cgtcgtcaca gctcccccaa
     3301 ccgcaaacga ttctcgcaaa tacgcaagta tctgcaaaaa caggtttttt tcggggttcc
     3361 tgggagactg tgc
//
