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JOURNAL Unpublished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 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/
##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##
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"
/country="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="MKDMKAVVVFTGKDLNIMRTEGGSGYWHARTDRLNDADYLIAVR
NRRETWAVKDLEHGTAFLIAKITGCFKSPDYDDRNVITFDEYAEIHTPKAWKMLTDGQ
RYPVAYLSAQEAFLRIGVTPEQLEWKKFHPSSPSVPNTVIPGLAEEKTEKLSLNEAIE
RAKKDISNATGIDSSAITISIKI"
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="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMFGLMQREN
AALSERVTGLSRQVQSLSEQLRRLSQG"
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="MNSLLTLAKDLEQKSKAQQQSTGEMLKVAFSEHEKFVRAELSES
EKRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSTLLTASGASILWWQGQQ
ILDNYTIIREQKSTQAMLSERNSGVQISTCGEQRRRCVRVNPEAGRFGEDSSWMILAG
K"
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"
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="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLAEKPARAGKLPS
ISPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKG
ADDDR"
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"
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="MPAPNNYGVAGSPNSAIAHPDGLDCYGRVPEINSKGDVIPAGDI
FLRVGRHTGPNRGFGVRHIWAEHEQELVKLGYATVNDVARFVRDIIRRGVPIYCEFNS
TSGKHRPAVLKSSVGIVILEPREAPETESGWIYVVVTAYTRRTAHGTLVGHIE"
CONTIG join(CP004857.1:1..4773)
//
