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Staphylococcus sp. AtHG25 Ga0060195_140, whole genome shotgun sequence

NCBI Reference Sequence: NZ_QJSN01000040.1

FASTA Graphics 

LOCUS       NZ_QJSN01000040         2539 bp    DNA     linear   CON 23-SEP-2024
DEFINITION  Staphylococcus sp. AtHG25 Ga0060195_140, whole genome shotgun
            sequence.
ACCESSION   NZ_QJSN01000040 NZ_QJSN01000000
VERSION     NZ_QJSN01000040.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN06161130
            Assembly: GCF_003217445.1
KEYWORDS    WGS; RefSeq.
SOURCE      Staphylococcus sp. AtHG25
  ORGANISM  Staphylococcus sp. AtHG25
            Bacteria; Bacillati; Bacillota; Bacilli; Bacillales;
            Staphylococcaceae; Staphylococcus.
REFERENCE   1  (bases 1 to 2539)
  AUTHORS   Partida-Martinez,L.
  TITLE     The Agave Microbiome: Exploring the role of microbial communities
            in plant adaptations to desert environments
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2539)
  AUTHORS   Partida-Martinez,L., Huntemann,M., Clum,A., Pillay,M.,
            Palaniappan,K., Varghese,N., Mikhailova,N., Stamatis,D., Reddy,T.,
            Daum,C., Shapiro,N., Ivanova,N., Kyrpides,N. and Woyke,T.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-JUN-2018) Prokaryotic Super Group, DOE Joint Genome
            Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598, USA
COMMENT     REFSEQ INFORMATION: The reference sequence is identical to
            QJSN01000040.1.
            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        :: SPAdes v. 3.10.1
            Expected Final Version :: No
            Genome Coverage        :: 472.0x
            Sequencing Technology  :: Illumina HiSeq
            ##Genome-Assembly-Data-END##
            
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_003217445.1-RS_2024_09_23
            Annotation Date                   :: 09/23/2024 01:03:09
            Annotation Pipeline               :: NCBI Prokaryotic Genome
                                                 Annotation Pipeline (PGAP)
            Annotation Method                 :: Best-placed reference protein
                                                 set; GeneMarkS-2+
            Annotation Software revision      :: 6.8
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,488
            CDSs (total)                      :: 2,408
            Genes (coding)                    :: 2,290
            CDSs (with protein)               :: 2,290
            Genes (RNA)                       :: 80
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 1 (5S, 16S)
            partial rRNAs                     :: 5, 6 (16S, 23S)
            tRNAs                             :: 58
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 118
            CDSs (without protein)            :: 118
            Pseudo Genes (ambiguous residues) :: 0 of 118
            Pseudo Genes (frameshifted)       :: 35 of 118
            Pseudo Genes (incomplete)         :: 81 of 118
            Pseudo Genes (internal stop)      :: 30 of 118
            Pseudo Genes (multiple problems)  :: 24 of 118
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..2539
                     /organism="Staphylococcus sp. AtHG25"
                     /mol_type="genomic DNA"
                     /submitter_seqid="Ga0060195_140"
                     /strain="AtHG25"
                     /db_xref="taxon:1938895"
     gene            complement(<1..128)
                     /locus_tag="BDW31_RS12300"
                     /old_locus_tag="BDW31_1401"
                     /pseudo
     CDS             complement(<1..128)
                     /locus_tag="BDW31_RS12300"
                     /old_locus_tag="BDW31_1401"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001105942.1"
                     /note="incomplete; too short partial abutting assembly
                     gap; missing C-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="IS6 family transposase"
     gene            complement(<186..434)
                     /locus_tag="BDW31_RS12305"
                     /old_locus_tag="BDW31_1402"
                     /pseudo
     CDS             complement(<186..434)
                     /locus_tag="BDW31_RS12305"
                     /old_locus_tag="BDW31_1402"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020368559.1"
                     /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="protein rep"
     gene            747..1421
                     /locus_tag="BDW31_RS12310"
                     /old_locus_tag="BDW31_1403"
     CDS             747..1421
                     /locus_tag="BDW31_RS12310"
                     /old_locus_tag="BDW31_1403"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011304063.1"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /GO_function="GO:0015267 - channel activity [Evidence
                     IEA]"
                     /GO_process="GO:0055085 - transmembrane transport
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="aquaporin"
                     /protein_id="WP_011304063.1"
                     /translation="MRKIIAEFLGTFILVFFGTGTAVFMSLSPDNSVGTLGVAIAFGL
                     TIIAAAYAIGDISGGHLNPAVSLGMFLDKRLSLINLFIYTISQTMGAIFATFLIWSIS
                     STLKTDLDQYGANLPGDLSLSGAFLVEVILTFVFVFIVLSVTTTKFIAPNLAVLVIGF
                     TLTMVHLIGIPLTGTSVNPARSIGPALFTGGEALSTLWIFILAPLLGAVIAALTHKIL
                     RKPNIQ"
     gene            complement(2273..>2356)
                     /locus_tag="BDW31_RS12825"
                     /pseudo
     CDS             complement(2273..>2356)
                     /locus_tag="BDW31_RS12825"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001568503.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
     gene            2412..>2539
                     /locus_tag="BDW31_RS12315"
                     /old_locus_tag="BDW31_1406"
                     /pseudo
     CDS             2412..>2539
                     /locus_tag="BDW31_RS12315"
                     /old_locus_tag="BDW31_1406"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001105942.1"
                     /note="incomplete; too short partial abutting assembly
                     gap; missing C-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="IS6 family transposase"
CONTIG      join(QJSN01000040.1:1..2539)
//
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