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Klebsiella aerogenes strain UCI179 scaffold00002, whole genome shotgun sequence

NCBI Reference Sequence: NZ_JACOIW010000002.1

FASTA Graphics 

LOCUS       NZ_JACOIW010000002      5691 bp    DNA     linear   CON 09-JAN-2025
DEFINITION  Klebsiella aerogenes strain UCI179 scaffold00002, whole genome
            shotgun sequence.
ACCESSION   NZ_JACOIW010000002 NZ_JACOIW010000000
VERSION     NZ_JACOIW010000002.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN08148302
            Assembly: GCF_014901455.1
KEYWORDS    WGS; RefSeq.
SOURCE      Klebsiella aerogenes
  ORGANISM  Klebsiella aerogenes
            Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria;
            Enterobacterales; Enterobacteriaceae; Klebsiella/Raoultella group;
            Klebsiella.
REFERENCE   1  (bases 1 to 5691)
  AUTHORS   Earl,A.M., Manson,A.L., Bhattacharyya,R., Brennan-Krohn,T.,
            Cosimi,L., Delaney,M., Ferraro,M.J., Gilmore,M., Gussin,G.,
            Hooper,D., Huang,S., Kim,D., Kirby,J., Onderdonk,A., Peterson,E.,
            Pierce,V., Shinoy,E., Wurster,J., Shea,T.P., Howe,W., Livny,J.,
            Cuomo,C.A., Neafsey,D.E. and Birren,B.W.
  TITLE     Multi-genus dynamics of carbapenem resistance within hospitals
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5691)
  AUTHORS   Earl,A.M., Manson,A.L., Bhattacharyya,R., Brennan-Krohn,T.,
            Cosimi,L., Delaney,M., Ferraro,M.J., Gilmore,M., Gussin,G.,
            Hooper,D., Huang,S., Kim,D., Kirby,J., Onderdonk,A., Peterson,E.,
            Pierce,V., Shinoy,E., Wurster,J., Shea,T.P., Howe,W., Livny,J.,
            Cuomo,C.A., Neafsey,D.E. and Birren,B.W.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-AUG-2020) Infectious Disease and Microbiome Program,
            Broad Institute, 415 Main Street, Cambridge, MA 02142, USA
COMMENT     REFSEQ INFORMATION: The reference sequence is identical to
            JACOIW010000002.1.
            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        :: AllPaths v. R48559
            Genome Representation  :: Full
            Expected Final Version :: No
            Genome Coverage        :: 111x
            Sequencing Technology  :: Illumina
            ##Genome-Assembly-Data-END##
            
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_014901455.1-RS_2025_01_09
            Annotation Date                   :: 01/09/2025 02:54:44
            Annotation Pipeline               :: NCBI Prokaryotic Genome
                                                 Annotation Pipeline (PGAP)
            Annotation Method                 :: Best-placed reference protein
                                                 set; GeneMarkS-2+
            Annotation Software revision      :: 6.9
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,047
            CDSs (total)                      :: 4,962
            Genes (coding)                    :: 4,881
            CDSs (with protein)               :: 4,881
            Genes (RNA)                       :: 85
            rRNAs                             :: 8, 5, 4 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 5, 3 (5S, 16S, 23S)
            partial rRNAs                     :: 1 (23S)
            tRNAs                             :: 62
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 81
            CDSs (without protein)            :: 81
            Pseudo Genes (ambiguous residues) :: 0 of 81
            Pseudo Genes (frameshifted)       :: 34 of 81
            Pseudo Genes (incomplete)         :: 46 of 81
            Pseudo Genes (internal stop)      :: 9 of 81
            Pseudo Genes (multiple problems)  :: 8 of 81
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..5691
                     /organism="Klebsiella aerogenes"
                     /mol_type="genomic DNA"
                     /submitter_seqid="scaffold00002"
                     /strain="UCI179"
                     /host="Homo sapiens"
                     /db_xref="taxon:548"
                     /geo_loc_name="USA: CA"
                     /collected_by="University of California, Irvine"
     gene            complement(19..198)
                     /locus_tag="CXM48_RS25075"
     CDS             complement(19..198)
                     /locus_tag="CXM48_RS25075"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165970.1"
                     /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_000165971.1"
                     /translation="MTKQEKTALNMAKFIKEQSLLLLDKLNELDMDTPADMCERLHED
                     AETLWQVMRDKLGEE"
     gene            267..644
                     /locus_tag="CXM48_RS25080"
     CDS             267..644
                     /locus_tag="CXM48_RS25080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004146445.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000312627.1"
                     /translation="MAWVTVRQATELTGKARSSLYRDMAKGRVSYRTEADGGRVVDTS
                     ELIRVYGELRQDETHERDELRLSGETEKMASDALIAEIKALREEVAGLRQEMQSMRLL
                     EHKPETAETPAGTPRRWWPWGKR"
     gene            complement(706..1005)
                     /locus_tag="CXM48_RS25085"
     CDS             complement(706..1005)
                     /locus_tag="CXM48_RS25085"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001146176.1"
                     /GO_component="GO:0110001 - toxin-antitoxin complex
                     [Evidence IEA]"
                     /GO_function="GO:0090729 - toxin activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_001146176.1"
                     /translation="MPYDVEWKQGAIEDVTTLFDYIAENSSLWDAQNVTDRVLAAADK
                     LADFPRLYEVDSRYGEDVRRISLMGQHVLYDVDDQTRKVRVLAVVGQRQNPHIVL"
     gene            complement(995..1258)
                     /locus_tag="CXM48_RS25090"
     CDS             complement(995..1258)
                     /locus_tag="CXM48_RS25090"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000072676.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000072676.1"
                     /translation="MSNTTHYENANFLRELAESLPRILPEGGPDKAALLQRLANEELA
                     QAEYEDQVRAKVTAARADTRPGMTTEQLRQRLHGRYQELRDAV"
     gene            complement(1564..1983)
                     /locus_tag="CXM48_RS25095"
     CDS             complement(1564..1983)
                     /locus_tag="CXM48_RS25095"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016247941.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Exc2 family lipoprotein"
                     /protein_id="WP_001254601.1"
                     /translation="MRRSGSKLCLIAMITATATLTACAPKGSVEQHTRHYVYASDDGF
                     DPNFSTQKADTTRMMVPFFRQFWDMGAKDKATGKSRSDVQQRIQQFHSQEFLNSLQGT
                     TQFAGTDYRSKDLTPKKSRLLADTISAVYLDGYEGRQ"
     gene            2386..4071
                     /locus_tag="CXM48_RS25100"
     CDS             2386..4071
                     /locus_tag="CXM48_RS25100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010891190.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin-like bacteriocin tRNase
                     domain-containing protein"
                     /protein_id="WP_193108039.1"
                     /translation="MSGGDGRGPGNSGLGHNGGQASGNVNGTSGKGGPSSGGGTDPNS
                     GPGWGTTHTPNGDIHNYNPGEFGNGGSKPGGNGGNSGNHSGSSGGGQSSATAMAFGLP
                     ALATPGDEGLALSVSGDALSAAVADVLAALKGPFKFGLWGIAIYGVLPSEIAKDDPKM
                     MSKIVTSLPADTVTETPVSSLPLDQATVSVTKRVADIVKDERQHIAVVTGRPMSVPVV
                     DAKPTKRPGVFSVSIPGLPSLQVSVPKGVPAAKAPPKGIIAEKGDSRPAGFTAGGNSR
                     EAVIRFPKESGQKPVYVSVTDVLTPAQVKQRLEEEKRRQQAWDAAHPEEGLKREYDKA
                     KAELDAEDKNIATLNSRIASTEKAIPGARAAVQEADKKVKEAEANKDDFVTYNPPHEY
                     GSGWQDQVRYLDKDIQNQNEKLKAAQTSLNEMNESLSRDKAALSGAMESRKQKEKKAK
                     DAENKLNEEKKKPRKGTKDYGHDYFPDPKTEDIKGLGELKEGKPKTPKQGGGGKRARW
                     YGDKKRKIYEWDSQHGELEGYRASDGEHLGAFDPKTGKQVKGPDPKRNIKKYL"
     gene            4081..4338
                     /locus_tag="CXM48_RS25105"
     CDS             4081..4338
                     /locus_tag="CXM48_RS25105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010891189.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="cloacin immunity family protein"
                     /protein_id="WP_004152553.1"
                     /translation="MGLKLHIHWFDKKTEEFKGGEYSKDFGDDGSVIESLGMPLKDNI
                     NNGWFDVEKSWVSILQPHFKNVIDISKFDYFVSFVYRDGNW"
     gene            4423..4572
                     /locus_tag="CXM48_RS25110"
     CDS             4423..4572
                     /locus_tag="CXM48_RS25110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010891188.1"
                     /GO_component="GO:0019867 - outer membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WP_004152552.1"
                     /translation="MKKVKVVFLFILIFSGFLLVACQANYIRDVQGGTVAPSSSSELT
                     GIAVQ"
CONTIG      join(JACOIW010000002.1:1..5691)
//
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