LOCUS       NZ_CP084196             3263 bp    DNA     circular CON 13-NOV-2023
DEFINITION  Salmonella sp. A39 plasmid unnamed2, complete sequence.
ACCESSION   NZ_CP084196
VERSION     NZ_CP084196.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21849513
            Assembly: GCF_020221795.1
KEYWORDS    RefSeq.
SOURCE      Salmonella sp. A39
  ORGANISM  Salmonella sp. A39
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3263)
  AUTHORS   Lu,X. and Li,R.
  TITLE     Salmonella A39Chromosome sequence
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3263)
  AUTHORS   Lu,X. and Li,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-SEP-2021) College of Biological and Pharmaceutical
            Engineering, Wuhan Polytechnic University, No. 68 Xuefu South Road,
            Evergreen Garden, Dongxihu District, Wuhan, Hubei 430000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. August-2021
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 267.6x
            Sequencing Technology             :: PacBio; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/13/2023 04:09:00
            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)                     :: 4,902
            CDSs (total)                      :: 4,777
            Genes (coding)                    :: 4,622
            CDSs (with protein)               :: 4,622
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 155
            CDSs (without protein)            :: 155
            Pseudo Genes (ambiguous residues) :: 0 of 155
            Pseudo Genes (frameshifted)       :: 75 of 155
            Pseudo Genes (incomplete)         :: 88 of 155
            Pseudo Genes (internal stop)      :: 30 of 155
            Pseudo Genes (multiple problems)  :: 34 of 155
            Pseudo Genes (short protein)      :: 1 of 155
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP084196.1.
            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..3263
                     /organism="Salmonella sp. A39"
                     /mol_type="genomic DNA"
                     /strain="A39"
                     /isolation_source="chicken"
                     /db_xref="taxon:2878546"
                     /plasmid="unnamed2"
                     /geo_loc_name="China: jiangxi"
                     /collection_date="2020-12-20"
     gene            join(3005..3263,1..65)
                     /gene="mobA"
                     /locus_tag="LDO68_RS24455"
     CDS             join(3005..3263,1..65)
                     /gene="mobA"
                     /locus_tag="LDO68_RS24455"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            complement(273..851)
                     /locus_tag="LDO68_RS24465"
     CDS             complement(273..851)
                     /locus_tag="LDO68_RS24465"
                     /inference="COORDINATES: protein motif:HMM:NF025107.3"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_052266651.1"
                     /translation="MKSEIELKKTEHSSVEIPERILAIWGRSILNSGWTSVPNELLKNQ
                     SKLGIGNTELVLLINLISFMHHPDARVYPSISLLCERMNQDRRTIQRNLNKLVEMDILR
                     IKIRSTGKNSKGMTNLYDITPLMLKLINLKIPSLNTPDEKHTCPKCGKIAISREEITKE
                     FGFRTDTNGKMRTQSWCKDCRGRKIADLP"
                     /name="helix-turn-helix domain-containing protein"
     gene            1248..1703
                     /locus_tag="LDO68_RS24470"
     CDS             1248..1703
                     /locus_tag="LDO68_RS24470"
                     /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_039023474.1"
                     /translation="MTTKFNKFELHSAFRDGKLNEKYFVDLPYLKEEQRRALASFLGAI
                     TREEPLPGKNKPSWLDDNSIKISGTDAYEDGNYWHYHCGPYPEGVKLRSMTFNLGMNVA
                     GLTSAEVIHYQKLNDGTVFVVGFSPTHEPFPKSDAPHYNPLFTESDD"
                     /name="hypothetical protein"
     gene            complement(2538..2732)
                     /locus_tag="LDO68_RS24475"
     CDS             complement(2538..2732)
                     /locus_tag="LDO68_RS24475"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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_001041643.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEVENSTEI"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2770..2996
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="88.797"
                     /coverage="99.0"
                     /evalue="6.34e-74"
     Typing          complement(1980..2509)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.786"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          3006..3262
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="80.0"
                     /evalue="2.02e-49"
ORIGIN
        1 cggaggtgct gatcgctatt acggagtatc accgtgccct gttatccagg cttatggctg
       61 attagcttcc cggagagaaa ctgtcgaaaa cagacgatat gaacgccgta agcccccaaa
      121 ccgatcgcca ttcagtttca tgcatagtca tgcaacgcgc tgaaaacaat cctgacgcat
      181 ttttccggtt taccccgggg aaaacatctc tttttgcggt gtttgcggca gaatcgcgtt
      241 cagcgcgttt ctgcggtgcg cgtaatgcga cgttatggta aatccgcaat tttcctacct
      301 cgacaatcct tgcaccaact ttgcgttctc atcttcccat tagtgtcagt tctgaatcca
      361 aactcctttg ttatttcttc tcttgatatg gctatttttc cgcattttgg acacgtatgt
      421 ttttcatcgg gcgtatttaa agatggtatt tttaggttga ttaacttcag cattaaaggg
      481 gttatgtcat acaagttagt cattccttta gagtttttgc cggtggagcg tatttttatc
      541 ctcagaatgt ccatttctac taacttgttt aaatttctct gaattgttcg tctgtcctga
      601 ttcattcttt cgcatagaag tgaaattgat gggtacactc ttgcgtcagg atgatgcatg
      661 aaagatatca gattaatcaa aagtacaagc tctgtgtttc ctattcctag cttagattgg
      721 ttttttaata gttcattggg gacggatgtc cagccagagt ttaaaatgct gcgcccccat
      781 atggctaaga tcctttctgg gatctctact gatgagtgtt ctgttttttt gagttcgatt
      841 tctgatttca atttctgtca ccaatcataa taacaatacc tatatatata ggtattgtta
      901 ttatgattta ttatttgggc ggcatcaatg ccgcccttta atttgaccaa aaaggcctaa
      961 tgtctagcac tgggaaagga cctctcttac catctaattg agtaagattt tatcttccca
     1021 gacttcttca aacataggac tgacatgttg gcaaacgtac gatttgataa tcacagctgc
     1081 gatacagaac gtcgtcagca gtacaaatct cgtgctgacg aagtgctgct ctcgcgttca
     1141 tacaagaatc aggcacatga agcgttaaaa tgcgattctc cgcagtctga tgaatcgatc
     1201 tttgatatgc tatctactta ctcagtaagg taagtggaaa gtgtttgatg acaaccaaat
     1261 tcaataagtt tgagcttcat tcggctttcc gagacgggaa gctgaatgaa aagtatttcg
     1321 tagatttacc ctacctcaaa gaagagcaac gccgggcatt agcctctttc ttgggtgcga
     1381 taactcgtga agagcctctt ccagggaaaa acaagccttc atggcttgat gataattcca
     1441 ttaaaatttc cggtactgat gcgtacgaag acgggaacta ctggcattat cattgcggtc
     1501 catatccaga aggggtcaaa cttagatcga tgacttttaa cttgggtatg aacgttgcgg
     1561 ggctaacctc cgctgaagtg atccactatc aaaaactcaa cgatggcacg gtgtttgtcg
     1621 taggcttctc ccctacacat gagcccttcc ctaagtctga tgcgccgcat tacaacccac
     1681 tcttcactga atcagatgat taaatatctg aatagtggct ggtaaggata tgttgagatt
     1741 tttttctctc agctgtagtc tcttttccag aaacgaaaaa accacctggg gaggtggttt
     1801 ttcgaaggtt cagtaagttg gggaacttct gaaccgtggt aacagtcttg tgcgagacat
     1861 gtcaccaaat ctgtcctttc agtgtagccg cagtcaggcc accacttcaa gaactctcga
     1921 tacatctctc gcacatcctg tctaccaatg gccgcagcca atggcgataa gtcgtgtctt
     1981 tccgggttgg actcaagacg atagttaccg gataaggcgc agcggtcggg ctgaacgggg
     2041 ggttcgtgca cacagcccag cttggagcga acgacctaca ccgaactgag ataccaacag
     2101 cgtgagctat gagaaagcgc cacgcttccc gaagggagaa aggcggacag gtatccggta
     2161 agcggcaggg tcggaacagg agagcgcacg agggagcttc cagggggaaa cgcctggtat
     2221 ctttatagtc ctgtcgggtt tcgccacctc tgacttgagc gtcgattttt gtgatgctcg
     2281 tcaggggggc ggagcctatg gaaaaacgcc tgcggtgctg gcttcttccg gtgctttgct
     2341 ttttgctcac atgttctttc cggctttatc ccctgattct gtggataacc gtattaccgc
     2401 ctttgagtga gctgacaccg ctcgccgcag tcgaacgacc gagcgtagcg agtcagtgag
     2461 cgaggaagcg gaagagcgcc ttatgtgaca ttttctcctt acgctctgtt gtgccgttcg
     2521 gcatcctgcc ctgagcgtta tatctctgtg ctattttcta cttcaaagcg tgtctgtatg
     2581 ctgttctgga gttcttctgc gagttcgtgc agcttctcac acatggcggc ctgctcgtca
     2641 gcatcgagtg cgtccagttt ttcgagcagc gtcaggctct ggctttttat gaatccagcc
     2701 atgttgagta cagtttgctg ctgcttgttc atctttctgt tttctccgtt ctgtctgtca
     2761 tctgcgtcgt gtgattatat cgcgcaccac ttttggaccg tcttaccgcc ggtattctgc
     2821 cgacggacat ttcagtcaga caacactgtc actgccaaaa aaacagcagt gctttgttgg
     2881 taattcgaac ttgcagacag gacaggatgt gcaattgtta taccgcgcat acatgcacgc
     2941 tattacaatt accctggtca gggcttcgcc ccgacacccc atgtcagata cggagccatg
     3001 ttttatgaca aaacgaagtg gaagtaatac gcgcaggcgg gctatcagtc gccctgttcg
     3061 tctgacggca gaagaagacc aggaaatcag aaaaagggct gctgaatgtg gcaagaccgt
     3121 ttccggtttt ttacgggcgg cagctctcgg taagaaagtt aactcactga ctgatgatcg
     3181 ggtactgaaa gaagttatga gactgggggc gttacagaaa aaactcttta tcgacggcaa
     3241 gcgtgtcggg gacagggagt atg
//
