LOCUS       NC_021869               4773 bp    DNA     circular CON 03-JAN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Heidelberg str. 41578
            plasmid pSEEH1578_03, complete sequence.
ACCESSION   NC_021869
VERSION     NC_021869.1
DBLINK      BioProject: PRJNA224116
            Assembly: GCF_000430105.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Heidelberg str. 41578
  ORGANISM  Salmonella enterica subsp. enterica serovar Heidelberg str. 41578
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4773)
  AUTHORS   Hoffman,M., Allard,M., Strain,E. and Brown,E.
  TITLE     Rapid genome closure with Pacific Biosystems technology
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4773)
  AUTHORS   Strain,E.A., Brown,E., Allard,M.W. and Luo,Y.L.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-MAR-2013) Center for Food Safety and Applied
            Nutrition, United States Food and Drug Administration, 5100 Paint
            Branch Parkway, College Park, MD 20740, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Newbler v. 2.6
            Genome Coverage                   :: 20x
            Sequencing Technology             :: 454 Titanium
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/03/2024 13:21:59
            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)                     :: 4,857
            CDSs (total)                      :: 4,735
            Genes (coding)                    :: 4,602
            CDSs (with protein)               :: 4,602
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 133
            CDSs (without protein)            :: 133
            Pseudo Genes (ambiguous residues) :: 0 of 133
            Pseudo Genes (frameshifted)       :: 57 of 133
            Pseudo Genes (incomplete)         :: 86 of 133
            Pseudo Genes (internal stop)      :: 26 of 133
            Pseudo Genes (multiple problems)  :: 30 of 133
            Pseudo Genes (short protein)      :: 1 of 133
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP004857.1.
            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..4773
                     /organism="Salmonella enterica subsp. enterica serovar
                     Heidelberg str. 41578"
                     /mol_type="genomic DNA"
                     /strain="41578"
                     /serovar="Heidelberg"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:1124936"
                     /plasmid="pSEEH1578_03"
                     /geo_loc_name="USA: OH"
                     /collection_date="2011"
                     /collected_by="FDA"
     gene            346..897
                     /locus_tag="SEEH1578_RS24030"
                     /old_locus_tag="SEEH1578_00739"
     CDS             346..897
                     /locus_tag="SEEH1578_RS24030"
                     /old_locus_tag="SEEH1578_00739"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000654246.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000654246.1"
                     /translation="MKDMKAVVVFTGKDLNIMRTEGGSGYWHARTDRLNDADYLIAVRN
                     RRETWAVKDLEHGTAFLIAKITGCFKSPDYDDRNVITFDEYAEIHTPKAWKMLTDGQRY
                     PVAYLSAQEAFLRIGVTPEQLEWKKFHPSSPSVPNTVIPGLAEEKTEKLSLNEAIERAK
                     KDISNATGIDSSAITISIKI"
                     /name="hypothetical protein"
     gene            complement(1096..1311)
                     /locus_tag="SEEH1578_RS26530"
     CDS             complement(1096..1311)
                     /locus_tag="SEEH1578_RS26530"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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_000137420.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMFGLMQRENA
                     ALSERVTGLSRQVQSLSEQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1315..1800)
                     /locus_tag="SEEH1578_RS26535"
                     /old_locus_tag="SEEH1578_00749"
     CDS             complement(1315..1800)
                     /locus_tag="SEEH1578_RS26535"
                     /old_locus_tag="SEEH1578_00749"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /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_001086855.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKVAFSEHEKFVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSTLLTASGASILWWQGQQIL
                     DNYTIIREQKSTQAMLSERNSGVQISTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            complement(<1835..2539)
                     /locus_tag="SEEH1578_RS27130"
                     /pseudo=""
     CDS             complement(<1835..2539)
                     /locus_tag="SEEH1578_RS27130"
                     /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(2478..2801)
                     /locus_tag="SEEH1578_RS24040"
                     /old_locus_tag="SEEH1578_00754"
     CDS             complement(2478..2801)
                     /locus_tag="SEEH1578_RS24040"
                     /old_locus_tag="SEEH1578_00754"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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_000957080.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLAEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3439..3522
                     /locus_tag="SEEH1578_RS27135"
     CDS             3439..3522
                     /locus_tag="SEEH1578_RS27135"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /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_071588017.1"
                     /translation="MHDPPVQSDRCALSGNYRLESNPDRHD"
                     /name="replication initiation protein"
     gene            complement(4116..4583)
                     /locus_tag="SEEH1578_RS26630"
     CDS             complement(4116..4583)
                     /locus_tag="SEEH1578_RS26630"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011899450.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_153266272.1"
                     /translation="MPAPNNYGVAGSPNSAIAHPDGLDCYGRVPEINSKGDVIPAGDIF
                     LRVGRHTGPNRGFGVRHIWAEHEQELVKLGYATVNDVARFVRDIIRRGVPIYCEFNSTS
                     GKHRPAVLKSSVGIVILEPREAPETESGWIYVVVTAYTRRTAHGTLVGHIE"
                     /name="hypothetical protein"
     Typing          complement(2903..3090)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.34"
                     /coverage="87.0"
                     /evalue="2.7100000000000003e-47"
     Typing          3036..3548
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.636"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(993..2488)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.984"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 taacatccct tgcccgcacc gctccggacg ggttcagcgt gaaagcggcg ttagcccggt
       61 aaaaccggca gtaaactccc cgctaaaccg cgcattctgc gcctgataaa tttcacgcgg
      121 ctgcatagcc atgcagccac gtgaatggct catgctttca atgtatatcc tcgtccaagc
      181 ccctgtttta accggtttat caaaaaaaca aacaggaagc cttatcacta acaataaaag
      241 aggtaggggg ctgcatttta tcgcataaaa aacatttaca acacgaattc tatcgtatag
      301 atttcataaa aaaatgaaat tgactcacct attaagggtt tctatatgaa agatatgaaa
      361 gctgttgtgg tttttaccgg gaaggatttg aacataatga gaaccgaggg ggggtcaggc
      421 tactggcatg ccagaacaga caggctcaac gatgccgatt acctcatagc agtaagaaac
      481 agaagggaaa cgtgggcagt aaaagacctg gaacacggca cagcattcct gatcgccaaa
      541 attaccgggt gttttaaaag ccctgattac gacgacagga acgtcataac ctttgatgaa
      601 tacgcagaaa ttcacactcc aaaagcatgg aaaatgctaa ccgatggtca gcgctatccg
      661 gttgcttacc tgagcgcaca ggaagctttt ttacgtattg gggtaacacc ggaacaactg
      721 gaatggaaga aattccatcc ttcatcccca tcggttccta atacagtgat tcctggtctg
      781 gctgaagaga aaacagaaaa actctccctt aacgaggcaa ttgaaagagc caaaaaggat
      841 attagcaacg caacagggat tgatagctca gccataacaa taagcatcaa gatctgatga
      901 agcgtgaaca acaagatagc agcctcatgt tctagaactg aacctgtgcg ccagaaacag
      961 caagcccatg cttttccggc gcacagattc aaagtgacgg accgttgtac gttcgctgtc
     1021 gctgagatcg ttccagctcc agcgctttct gatgctgcgc cgcccgttcc tgctcacgat
     1081 gtgcctctat cacgttcagc cttgtgacaa ccggcgcagc tgctcgctca aactctgcac
     1141 ctgcctgctc aagcccgtga cgcgctcgct cagcgccgcg ttctcccgtt gcataagacc
     1201 aaacatcgtc cgccattccg cgaaggcgtt ctcccactcg tccagccttt tcgagtagtc
     1261 ctgctgtagc tgctctaatg cgctcagcaa ctgtttttcc agctccgtca tgtgctattt
     1321 ccccgccagt atcatccagc tcgaatcctc tccgaaccgt cccgcttccg ggttcaccct
     1381 cacgcagcgg cgtctctgct ctccgcaggt cgagatctgc acgccgctgt tcctctcgga
     1441 cagcatggcc tgcgtgctct tctgctcccg gatgatcgtg taattgtcga gtatctgctg
     1501 tccctgccac catagaatgc ttgcgcccga tgctgtcagc agtgtagaca ccaggacgat
     1561 ggtcagccac gtctggctga ccatacgcac catgcctttc gtgcgctggc tcatggctga
     1621 ggacagcttc cggtcgtggt cgaggatggc ggcgctgatt ctcttctcgc tttcgctcag
     1681 ttccgctctg acaaacttct cgtgctcgct gaatgcgact ttcagcatct cgccggtact
     1741 ctgctgctgc gctttcgatt tctgctctaa gtccttcgcc agcgttaaaa gactgttcat
     1801 agatggctcc cttcagtcgg atgtttcgcc ccccgtccgg gtcggcaatg ctgatgctgc
     1861 tttttgtggt gcgcaccacc tcaaaacctg cgctttctag cgcctcagtg acgtcctggc
     1921 gggttttcag ccccccggac gaggctaagg ccagtaaacc ccgtgtaatt gcctgagcgg
     1981 cttcctgctt cgttttcggc agcgcggacg gcgtgaccag cgcccgccgg ttttcaggcg
     2041 cgttcgggtc atgcagcccc agcctgccgt tcacgatggt ctgccaggca tcaatgcgcg
     2101 gacggtcggc gcggtcgtaa tacggctgga gacgcctgcc tgtcagcagc tccatgttcg
     2161 ggatcaggaa gttcagctcc agccgcccct tatcctggtg ctcaacccat agcacgctgt
     2221 actggtcttt atcgagtccg ggcatcagaa cccgttcaaa gctcgccatc agcttttcgc
     2281 gctgcccggg cggtaaatcc ttttcggcaa aggacaggac gccggatgtg tacttttttg
     2341 cgtagggcga ggcgtcgata agctccctga cttcttccgg cttcccctgc agaacggtgg
     2401 cgccgtcgcg ctgtcggtct ttccccagca gataatccac cggaccggcg ccaccgccgc
     2461 gccctcgcgg gtgaaactta acgatcatcg tctgcaccct tttccagcac ggcatgccgc
     2521 agccgctcga gtccggcatc tatggccatc agcgcggcga cgacctgcac gcggtcgtgc
     2581 ccgctgccgc caccggcgtt aacctgccgg gcaatctggt tgaggttatt ccccatgccg
     2641 gcaagctgac gaagcagcgc cggcgagatt gagggaagct tgccggcgcg ggcgggtttc
     2701 tcggccaggc acgtctggcg catccaggct gcaagctgtt taccgtcgca gcgttccagc
     2761 agacggcggt gctcatcttc ggtcacccac atggtgagca tcttgttccg tttctctgac
     2821 aaaccgatct cctgataacg ccgggacggg cgggaaatct tttcccggtc ggcgcggtgt
     2881 tggacaagcc gcaggcgcgt cagtggtttt agcaggtttc ggggcgcagc cctgaaccag
     2941 tcacgtagcg ctagcggagt gtatactggc tcaatatgtt acggcggagt aacacgtaat
     3001 gaaagtgctt catgtggcag gagaaaaatg cagctgcagg gcgtacagga gaaaatggag
     3061 gttacggtga tatgacgcct cctcgctcac tcggtcgctt ccgctcctga cgttcggctg
     3121 cggcgggcgt tacctgcaaa cggataagag caaaggcata cggcatggca agcaggacag
     3181 gaaaaggatg cggcgctgcc gtttttccat aggctccgcc cccctgacaa gcatcacgaa
     3241 atctgacgct caaatcagtg gtggcgaaac ccgacaggac ttaaagatac caggcgtttc
     3301 cccctggtgg ctccctcgtg cgctctcctg ttcctgcctt tcggtttacc ggtgtcattc
     3361 cgctgttatg gccgcgttta tctcattcca cgcctgacac tcagttccgg gtaggcagtt
     3421 cgctccaagc tggactgtat gcacgacccc cccgttcagt ccgaccgctg cgccttgtcc
     3481 ggtaactatc gtcttgagtc caacccggat agacacgact aatcgccatt ggcaacggcc
     3541 actggtaagc aggatgtgcg agagatgtaa cgagagttct tgaagtggcg gcctaactga
     3601 ggctacactg aaaggacagt atttggtgac atgtctcgca caagactgtt accacggtta
     3661 gagaatctgc caggattaac taaccttcga aaaaaccacc tgccagggtg gttttttcgt
     3721 ttctgagcaa gagactacga cgagccactg atgatctcaa gtgttcattt ctgatattca
     3781 cagcagaata actgttagga tatagggtat ctatagccag gagcttcaag aaatccagac
     3841 acagcaatgg attccagggt tatcgaaaaa aattagtata taggttgcaa ccaaaatgtt
     3901 ggttgcaaat ctacatcacg atgtttatga ttattgtact gcaagagcat tcgcaggggg
     3961 catcaaccag taataggcct tctgtgccgg gcagtcagat ggctggtcat ctgccgggta
     4021 gttacgacaa gcgtcggttt ctgaacccta tgtgctaagg aaatgctgcg actaccaacg
     4081 aattcataaa gggcgctttt tagcgcccta tttttttatt caatatgacc aaccaaagta
     4141 ccgtgcgccg tccttcgtgt gtacgcagtc acaacgacat agatccaacc tgactcagtt
     4201 tcaggcgctt ctctgggctc aagaattacg atgcctaccg acgactttag cactgcaggc
     4261 cgatgtttac cgcttgtact gttgaactcg caatatattg gtacgccacg acgaataata
     4321 tcccggacaa aacgagccac atcattaacg gtcgcatatc ccagcttaac cagttcctgc
     4381 tcgtgctcag cccagatatg gcgaacacca aagccccggt tagggccagt atgcctacca
     4441 acacgcaaga agatgtcgcc agcaggaata acatcacctt tagaattaat ttcagggaca
     4501 cggccatagc aatcaagccc atcagggtga gctatagcgc tgttaggtga accagctaca
     4561 ccgtaattgt ttggagcagg cacaaaacga tccttattga gtagagtccg catatggtac
     4621 cagagaggaa acaagcggaa ggagcccaag aaaaaagcag agacgataaa aagaatcctt
     4681 atggattatt tttttgtcct ttcatccttg gcgcataagg atatcacacc tgaaaatgtg
     4741 acgtgcgaat cgccctagca gctagattta cca
//
