LOCUS       EBP8252082               234 aa            linear   BCT 11-JUL-2019
DEFINITION  hemagglutinin, partial [Salmonella enterica subsp. enterica].
ACCESSION   EBP8252082
VERSION     EBP8252082.1
DBLINK      BioProject: PRJNA280335
            BioSample: SAMN03780346
            Sequence Read Archive: SRR2533653
DBSOURCE    accession AAGMXG010000106.1
KEYWORDS    GMI.
SOURCE      Salmonella enterica subsp. enterica
  ORGANISM  Salmonella enterica subsp. enterica
            Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria;
            Enterobacterales; Enterobacteriaceae; Salmonella.
REFERENCE   1  (residues 1 to 234)
  CONSRTM   GenomeTrakr network: Whole genome sequencing for foodborne pathogen
            traceback
  TITLE     Direct Submission
  JOURNAL   Submitted (14-JUL-2018) Center for Food Safety and Applied
            Nutrition, US Food and Drug Administraion, 5100 Paint Branch Pkwy,
            College Park, MD, USA
COMMENT     This draft WGS assembly was generated by running SKESA to generate
            a de-novo assembly. The de-novo assembly was then concatenated with
            contigs generated using a guided assembler using antimicrobial
            resistance genes as baits to comprehensively catalog the set of
            resistance genes in the isolate. Note, some parts of the contigs
            derived from the guided assembler may overlap de-novo contigs, and
            other guided assembler contigs. De-novo contigs can be
            differentiated from guided assembler contigs by their names , which
            include either 'denovo' or 'guided'.
            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 Date         :: 14-JUL-2018
            Assembly Method       :: SKESA v. 2.2
            Assembly Name         :: PDT000085346.2
            Long Assembly Name    :: NCBI Pathogen Detection Assembly
                                     PDT000085346.2
            Genome Coverage       :: 67x
            Sequencing Technology :: ILLUMINA
            ##Genome-Assembly-Data-END##
            
            ##Genome-Annotation-Data-START##
            Annotation Date                   :: 07/07/2019 02:23:33
            Annotation Method                 :: Best-placed reference protein
                                                 set; GeneMarkS-2+
            Annotation Pipeline               :: NCBI Prokaryotic Genome
                                                 Annotation Pipeline (PGAP)
            Annotation Provider               :: NCBI
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA;
                                                 repeat_region
            Annotation Software revision      :: 4.8
            Genes (total)                     :: 4,978
            CDSs (total)                      :: 4,884
            Genes (coding)                    :: 4,776
            CDSs (with protein)               :: 4,776
            Genes (RNA)                       :: 94
            rRNAs                             :: 6, 2, 1 (5S, 16S, 23S)
            complete rRNAs                    :: 4 (5S)
            partial rRNAs                     :: 2, 2, 1 (5S, 16S, 23S)
            tRNAs                             :: 73
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 108
            CDSs (without protein)            :: 108
            Pseudo Genes (ambiguous residues) :: 0 of 108
            Pseudo Genes (frameshifted)       :: 39 of 108
            Pseudo Genes (incomplete)         :: 67 of 108
            Pseudo Genes (internal stop)      :: 31 of 108
            Pseudo Genes (multiple problems)  :: 27 of 108
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..234
                     /organism="Salmonella enterica subsp. enterica"
                     /strain="ADRDL-LA-86-2014"
                     /isolation_source="bovine liver abscess"
                     /host="Bos taurus"
                     /sub_species="enterica"
                     /db_xref="taxon:59201"
                     /geo_loc_name="USA: CO"
                     /collection_date="2014"
                     /collected_by="ADRDL"
     Protein         <1..>234
                     /product="hemagglutinin"
     CDS             1..234
                     /locus_tag="AGR40_24855"
                     /coded_by="AAGMXG010000106.1:<1..>704"
                     /inference="COORDINATES: protein motif:HMM:PF00509.16"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=3
                     /transl_table=11
ORIGIN      
        1 fqnvnkvtyg kcpkyirqnt lklatgmrnv pekqirgifg aiagfiengw egmvdgwygf
       61 ryqnsegtgq aadlkstqaa idqingklnr viertnekfh qiekefseve griqdlekyv
      121 edtkidlwsy naellvalen qhtidltdae mnklfertrr qlrenaedmg ggcfkiyhkc
      181 nnacigsirn gtydhyiyrd ealnnrfqik gvelksgykd wilwisfais cfli
//