LOCUS       NZ_OX291477             4095 bp    DNA     circular CON 03-SEP-2023
DEFINITION  Serratia marcescens strain SJC1062 plasmid 4, complete sequence.
ACCESSION   NZ_OX291477
VERSION     NZ_OX291477.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA13201030
            Assembly: GCF_946404965.1
KEYWORDS    RefSeq.
SOURCE      Serratia marcescens
  ORGANISM  Serratia marcescens
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Yersiniaceae; Serratia.
REFERENCE   1
  CONSRTM   Pathogen Informatics
  TITLE     Direct Submission
  JOURNAL   Submitted (11-AUG-2022) WELLCOME SANGER INSTITUTE, Pathogen
            Informatics, Wellcome Sanger Institute, CB10 1SA, United Kingdom
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/02/2023 08:01:53
            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)                     :: 5,396
            CDSs (total)                      :: 5,266
            Genes (coding)                    :: 5,186
            CDSs (with protein)               :: 5,186
            Genes (RNA)                       :: 130
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 19
            Pseudo Genes (total)              :: 81
            CDSs (without protein)            :: 80
            Pseudo Genes (ambiguous residues) :: 0 of 81
            Pseudo Genes (frameshifted)       :: 32 of 81
            Pseudo Genes (incomplete)         :: 51 of 81
            Pseudo Genes (internal stop)      :: 13 of 81
            Pseudo Genes (multiple problems)  :: 12 of 81
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            OX291477.1.
            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..4095
                     /organism="Serratia marcescens"
                     /mol_type="genomic DNA"
                     /strain="SJC1062"
                     /serovar="NA"
                     /isolation_source="Bloodstream"
                     /db_xref="taxon:615"
                     /plasmid="4"
     gene            complement(358..1557)
                     /gene="mobQ"
                     /locus_tag="N4J64_RS26895"
                     /old_locus_tag="SAMEA13201030_05349"
     CDS             complement(358..1557)
                     /gene="mobQ"
                     /locus_tag="N4J64_RS26895"
                     /old_locus_tag="SAMEA13201030_05349"
                     /inference="COORDINATES: protein motif:HMM:NF041496.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_259694932.1"
                     /translation="MALYRLEMQNVSRANGVSSVAKAAYRHRSVMIDKRTGEIHGEKSA
                     NRDDLVYAEILAPDNTPDFLIKSSNDLWGFVEQTEKRKDARTAKEFKITLAKELSNEQN
                     IALMKDFLLNHFVDKGIICDFVLHNDKDNKNPHAHVMITTREITPDGFGKKVREWDEEK
                     TLQQWRKDWAKVQNRHLKNAGLKSRVSHRTLEAQKNIMIDLAKKAEDAKDFDKSILYLA
                     KAIELDRPPMQNLSRKKWRTKEGQEQRKRDQAIRDKAREDARAFRLLRGVAVVDVASFV
                     VHPLEKKEHSKNNDFSVKKSWWRSTVNFIKNIKAKFSTKKDIKNDVHASDDLMTDPVTG
                     LIITKQKWQEMSDRASQKAPEAAISYKVRQSDGEELKTSQNALQSDLDSVAVRRRRPKI
                     "
                     /name="mobQ"
     gene            1852..2247
                     /locus_tag="N4J64_RS26900"
                     /old_locus_tag="SAMEA13201030_05350"
     CDS             1852..2247
                     /locus_tag="N4J64_RS26900"
                     /old_locus_tag="SAMEA13201030_05350"
                     /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_128542756.1"
                     /translation="MDKKEIEKRLLIFISEIDIEDIKNDFINDEVNEDVFNRCLKLYYA
                     IDDAIYNNKKSLFEALIYLINKDRENKDHDETIITDYDLVYLTLNNYINIYELKRLFLL
                     QKNINDFDFKSMISEIEKIKREVENGK"
                     /name="hypothetical protein"
     gene            2237..2515
                     /gene="traD"
                     /locus_tag="N4J64_RS26905"
                     /old_locus_tag="SAMEA13201030_05351"
     CDS             2237..2515
                     /gene="traD"
                     /locus_tag="N4J64_RS26905"
                     /old_locus_tag="SAMEA13201030_05351"
                     /inference="COORDINATES: protein motif:HMM:NF018152.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_064184314.1"
                     /translation="MGSKKTLEQRMALAQDRLSKLKKEASEKERKAREHIKFKAGGEVT
                     RVFGLDYDEAVLLGFLAIYDKLKPEQKAQIKIDGENIIKSRLENADK"
                     /name="traD"
     gene            2648..2923
                     /locus_tag="N4J64_RS26910"
                     /old_locus_tag="SAMEA13201030_05352"
     CDS             2648..2923
                     /locus_tag="N4J64_RS26910"
                     /old_locus_tag="SAMEA13201030_05352"
                     /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_250249574.1"
                     /translation="MSQKKEQKTAEKPTAGPLRKHRSRTEKIDDLKKQISDLRKAEREE
                     RQRARNEILLAVGKAVYEKAGKPKNIYGLQQYVESEEFKVDFKNDF"
                     /name="hypothetical protein"
     gene            complement(2939..3211)
                     /locus_tag="N4J64_RS26915"
     CDS             complement(2939..3211)
                     /locus_tag="N4J64_RS26915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000125721.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003700 - DNA-binding transcription factor activity
                     [Evidence IEA]; GO:0016987 - sigma factor activity
                     [Evidence IEA]"
                     /GO_process="GO:0006352 - DNA-templated transcription
                     initiation [Evidence IEA]; 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="sigma factor-like helix-turn-helix DNA-binding
                     protein"
                     /protein_id="WP_072159717.1"
                     /translation="MAALEQTKRKKPAKYFAEKMGVSVRTVKRYIAQPRKDYESEAENR
                     RKTAYTLHHEKGLKWREVAEKMNTTEHAVKALAKRYKQIDQIERG"
                     /name="sigma factor-like helix-turn-helix DNA-binding
                     protein"
     gene            complement(3216..4073)
                     /locus_tag="N4J64_RS26920"
                     /old_locus_tag="SAMEA13201030_05353"
     CDS             complement(3216..4073)
                     /locus_tag="N4J64_RS26920"
                     /old_locus_tag="SAMEA13201030_05353"
                     /inference="COORDINATES: protein motif:HMM:NF015076.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_259694931.1"
                     /translation="MILQKEYSRSDFINQIISRPFCTDDFKRDGIYRTNKRRALNSVYI
                     EHNNDSFINSIVFDIDSDTAAIAWQDADIPKPNFITQNPANGHAHLFYALSSPVCITEN
                     ARRKPQKLLKGVIEGLTERLGADPCYTGKITKNPLNPRWRTFWNEQPRFELNYLCEFID
                     TNKRVKKEVRKSIVAEGRNTALFDSLRFYAYSIIFKYQKNDDFCGFMSALEEEAEHIND
                     SFEDQLGFKEINHTIRSISSWVWGTFDSDTFSEIQSNRAKKAKGKIKSKTKNKLSRILM
                     INEE"
                     /name="replication initiation protein"
     Typing          complement(395..1467)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="87.709"
                     /coverage="92.0"
                     /evalue="9.72e-180"
ORIGIN
        1 gtagatccct gattttctcc tgtcgccaaa cattcggaaa tcagggattt ttgtttttat
       61 attttatatt actgttctaa cagaaccttt catggtgtca agagtgtcac ccaaaaaaag
      121 tgtcaagagg gacgattagc catatcaggt aataatgggt ttggggggta tttttgcgaa
      181 gcacaggccg aaggcttcaa atcattacaa gttaagctat agcctgaacc cataaggccg
      241 gaggctatga gcgaagccct gtaatcttat gcaggatctg gctgtgctgg ttagctgaga
      301 accgcaccgg ctctatggta tatgcacatc acttcctgaa actcgaccac cctgcagcta
      361 gatcttcggt ctgcgtcttc taactgcaac actgtctaaa tcgctctgta acgcattctg
      421 agacgttttt agctcttccc cgtccgattg ccttaccttg tacgaaatcg cagcttctgg
      481 tgctttctgt gaagctctgt cactcatctc ttgccatttt tgcttcgtaa taatcaaacc
      541 agtcactgga tcagtcatta aatcgtctga tgcatgtaca tcgtttttaa tatctttttt
      601 agttgagaac ttagctttaa tattttttat aaaattaaca gtagaacgcc accacgattt
      661 tttaactgaa aaatcattat tttttgaatg ctcttttttc tccaaaggat gaaccacgaa
      721 tgaagcaaca tcaacaactg caacacccct caacaacctg aaagcccttg catcttctct
      781 tgccttgtct ctgatcgctt ggtcacgttt gcgttgctcc tgaccttctt ttgtcctcca
      841 ttttttacgt gataggttct gcatcggtgg tcgatctagt tcaatagctt ttgctagata
      901 taaaatagac ttgtcaaaat cttttgcatc ttctgctttt ttagctaaat cgatcattat
      961 atttttttgt gcttccaatg ttctatgact aacacgagat tttaagcctg cattttttaa
     1021 atgcctattt tgaacttttg cccaatcttt acgccattgt tgaagcgttt tttcttcatc
     1081 ccattcacgt accttttttc cgaacccatc gggcgttatt tctcttgttg taatcataac
     1141 gtgtgcatgt gggtttttat tatctttatc attatgtaaa acaaagtcac atataatgcc
     1201 tttatcaacg aaatgattta ataaaaaatc tttcattaat gcgatgtttt gttcattcga
     1261 taattctttt gctaaagtaa ttttgaattc tttcgccgtt ctagcatcct tcctcttctc
     1321 tgtttgttcg acaaaacccc ataaatcgtt actcgattta atgagaaaat ctggcgtgtt
     1381 atctggtgct aatatttcag cataaaccag atcatcacgg ttagctgatt tctcgccgtg
     1441 tatttctccg gttcgtttat ctatcatgac ggaacgatga cgataagccg cctttgcaac
     1501 tgagctgaca ccatttgcac ggcttacgtt ctgcatttct aatctatata aagccatcta
     1561 atacctcaca tataagaacc cctatttttg ttttgggttt gggttttagt ttttcgtaag
     1621 aaaaacaggt tttagccgtc ggcagacccc ggcattgttt acaatgcgta accgggcatt
     1681 ccttagcttt tatttttcgc taacgctcaa actaaaagag gaatgaaaac caaactagct
     1741 tttctttcac tgatatatat aaattaactc tgattaaatt aaagtcaaat ttgacaatat
     1801 ttaaaagtta cgatattgaa taaaaaacaa gcattataga ttggtggtaa aatggataaa
     1861 aaagaaatag aaaaaaggct attgattttt ataagcgaga tcgatattga agatattaaa
     1921 aacgatttca ttaatgacga agttaatgaa gatgttttta ataggtgttt aaagctgtat
     1981 tacgctatcg atgatgcaat ctataacaat aaaaaatcat tgtttgaagc gttgatatat
     2041 ttgataaata aagatcgtga aaataaagac catgatgaaa caattataac tgattatgat
     2101 cttgtttatt taacactaaa taattacata aatatctatg agctgaaaag gttgttctta
     2161 ttacaaaaaa atatcaatga ttttgatttt aaaagtatga tttcagagat agaaaaaatt
     2221 aaaagagagg ttgaaaatgg gaagtaaaaa aacgttagaa caaagaatgg cacttgcaca
     2281 agatagatta tctaaactta aaaaagaagc gtcagagaaa gaaagaaaag ctagagagca
     2341 tataaaattt aaagccggag gagaagttac tagagtcttc ggattagatt atgatgaagc
     2401 cgttttgctg ggttttctag ctatctatga caagctgaaa cctgagcaaa aagcacagat
     2461 aaaaattgat ggtgaaaaca tcataaaatc acgtctagaa aacgctgaca agtgacagat
     2521 ttccaatctg acacttggaa gggttgaaca agcaagaacc cgccgctggc ggggcttgtg
     2581 cgttagtatt cacgatagcc cggctttgtg gtatgtttaa aaaacatatc atccgggaga
     2641 gtaaaaaatg tctcaaaaaa aagagcaaaa aacagcagaa aaaccaactg cagggccact
     2701 tcgtaaacac agatctagaa ctgaaaaaat agacgatttg aagaaacaga ttagtgacct
     2761 gagaaaagca gaaagagaag aacgccaaag ggctagaaat gaaatattat tggctgttgg
     2821 taaagctgtt tacgaaaaag cagggaaacc gaaaaatata tatggcttgc agcaatatgt
     2881 agaatcagaa gaatttaaag tggattttaa aaacgatttc taaccatgaa ggggcatcct
     2941 agcccctttc gatttggtct atttgtttat atcttttggc taatgcttta actgcatgtt
     3001 ctgttgtatt cattttttca gctacttcac gccattttaa acctttttca tgatgtaatg
     3061 tataagctgt ttttcttctg ttttcagctt ctgattcata atcttttctt ggttgtgcaa
     3121 tatatctttt aactgttcta acactaacgc ccattttttc agcgaaatat ttcgcaggtt
     3181 tttttctttt tgtttgttct aatgctgcca tttttctact cctcattaat cattaaaatt
     3241 ctagatagtt tattttttgt ttttgatttt atttttcctt tagctttctt tgctctgttg
     3301 ctttgtattt cgctgaaagt atcactatca aaagtccccc acacccaaga agaaatgctt
     3361 cttattgtgt gatttatttc tttaaagcct agttgatctt caaatgaatc atttatgtgt
     3421 tcagcttctt cttctaatgc tgacatgaaa ccgcaaaaat cgtcattttt ttgatattta
     3481 aaaattatgc tgtaagcgta aaaacgcaga ctatcaaata acgctgtatt tcttccctct
     3541 gcaactattg attttcttac ttcttttttt actcttttat ttgtatctat gaactcacat
     3601 agatagttca attcaaatct tggttgttcg ttccaaaatg tacgccatct cggattgaga
     3661 gggttttttg ttatcttgcc cgtataacat ggatctgcac ctaacctttc cgtgagtcct
     3721 tctataacgc cttttaataa cttttgcggc tttcttctgg cgttttctgt tatacaaacg
     3781 ggagacgata aagcataaaa caaatgagcg tgaccattag ccggattttg agttataaag
     3841 ttaggtttcg gtatatctgc atcttgccat gcaatagcag ctgtatcgct gtcaatatca
     3901 aacacaatag agttaataaa gctatcgttg ttgtgttcaa tataaacgct gtttaaagct
     3961 cgtcttttgt ttgttctata aataccgtct cttttgaagt cgtcagtgca gaaaggtctt
     4021 gatataattt gatttatgaa atcacttctg ctatattctt tttgtagtat cattttttaa
     4081 tacaatcctt ttatt
//
