U.S. flag

An official website of the United States government

Escherichia coli strain MOD1-EC1543 MOD1-EC1543_100_length_4890_cov_22.1762, whole genome shotgun sequence

NCBI Reference Sequence: NZ_NJZS01000100.1

FASTA Graphics 

LOCUS       NZ_NJZS01000100         4890 bp    DNA     linear   CON 26-APR-2024
DEFINITION  Escherichia coli strain MOD1-EC1543
            MOD1-EC1543_100_length_4890_cov_22.1762, whole genome shotgun
            sequence.
ACCESSION   NZ_NJZS01000100 NZ_NJZS01000000
VERSION     NZ_NJZS01000100.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN05591721
            Assembly: GCF_002461955.1
KEYWORDS    WGS; RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria;
            Enterobacterales; Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4890)
  AUTHORS   Gangiredla,J., Mammel,M.K., Barnaba,T.J., Tartera,C., Gebru,S.T.,
            Patel,I.R., Leonard,S.R., Kotewicz,M.L., Lampel,K.A., Elkins,C.A.
            and Lacher,D.W.
  TITLE     Species-Wide Collection of Escherichia coli Isolates for
            Examination of Genomic Diversity
  JOURNAL   Genome Announc 5 (50), e01321-17 (2017)
   PUBMED   29242221
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4890)
  AUTHORS   Gangiredla,J., Barnaba,T., Gebru,S., Mammel,M.K., Lacher,D.,
            Tartera,C., Patel,I.R., Leonard,S., Lampel,K.A. and Elkins,C.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-JUN-2017) CFSAN-ORS-DM-MMSB, US Food and Drug
            Administration, 5100 Paint Branch Parkway, College Park, MD 20740,
            USA
COMMENT     REFSEQ INFORMATION: The reference sequence is identical to
            NJZS01000100.1.
            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. 3.8.2
            Genome Representation  :: Full
            Expected Final Version :: Yes
            Genome Coverage        :: 21.8x
            Sequencing Technology  :: Illumina NextSeq 500
            ##Genome-Assembly-Data-END##
            
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_002461955.1-RS_2024_04_26
            Annotation Date                   :: 04/26/2024 02:40:19
            Annotation Pipeline               :: NCBI Prokaryotic Genome
                                                 Annotation Pipeline (PGAP)
            Annotation Method                 :: Best-placed reference protein
                                                 set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,366
            CDSs (total)                      :: 5,273
            Genes (coding)                    :: 4,934
            CDSs (with protein)               :: 4,934
            Genes (RNA)                       :: 93
            rRNAs                             :: 7, 4, 1 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 1 (5S, 23S)
            partial rRNAs                     :: 4 (16S)
            tRNAs                             :: 71
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 339
            CDSs (without protein)            :: 339
            Pseudo Genes (ambiguous residues) :: 0 of 339
            Pseudo Genes (frameshifted)       :: 110 of 339
            Pseudo Genes (incomplete)         :: 247 of 339
            Pseudo Genes (internal stop)      :: 57 of 339
            Pseudo Genes (multiple problems)  :: 65 of 339
            Pseudo Genes (short protein)      :: 3 of 339
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..4890
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /submitter_seqid="MOD1-EC1543_100_length_4890_cov_22.1762"
                     /strain="MOD1-EC1543"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /geo_loc_name="Guinea-Bissau"
                     /collection_date="1997"
                     /collected_by="Michigan State University"
     gene            <1..3216
                     /locus_tag="BF020_RS26695"
     CDS             <1..3216
                     /locus_tag="BF020_RS26695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_415890.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="phage tail protein"
                     /protein_id="WP_096858468.1"
                     /translation="SMDVEHGQYSVTLLVEGFPPSHAGTITVYEGSRSGTLNDFLGAM
                     TEDDVRPEALRRFEQMVEEVSRNASAVAQNTAAAKKSASDASASASEAATHATDAAAS
                     ARAASTSAGQAASSAQSASSSAGTASTKTREAAKSAAAAESSKSAAATSASAAKTSET
                     NAAASQKSAATSASTATTKASEAATSARGAATSKEAAKSSETNASSSASSAASSATAA
                     GNSAKAAKTSETNAKSSETAAGQSASAAAGSKTAAALSASAASTSAGQASASATAAGK
                     SAESAASSASTATTKAGEATEQASAAARSASAAKTSETNAKASETSAESSKTAAASSA
                     SSAASSASSASASKDEATRQASAAKGSATTASTKATEAAGSATAAAQSKSTAESAATR
                     AETAAKRAEDIASAVALEDASTTKKGIVQLSSATNSTSETLAATPKAVKSAYDNAEKR
                     LQKDQNGADIPDKGRFLNNINAVSKTDFADKRGMRYVRVNAPAGATSGKYYPVVVMRS
                     AGSVSELASRVIITTATRTAGDPMNNCEFNGFVMPGGWTDRGRYAYGMFWQYQNNERA
                     IHSIMMSNKGDDLRSVFYVDGAAFPVFAFIEDGLSISAPGADLVVNDTTYKFGATNPA
                     TECIAADVILDFKSGRGFYESHSLIVNDNLSCKKLFATDEIVARGGNQIRMIGGEYGA
                     LWRNDGAKTYLLLTNQGDVYGGWNTLRPFAIDNATGELVIGTKLSASLNGNALTATKL
                     QTPRRVSGVEFDGSKDITLTAAHVAAFARRATDTYADADGGVPWNAESGAYNVTRSGD
                     SYILVNFYTGVGSCRTLQMKAHYRNGGLFYRSSRDGYGFEEDWAEVYTSKNLPPESYP
                     VGAPIPWPSDTVPSGYALMQGQTFDKSAYPKLAAAYPSGVIPDMRGWTIKGKPASGRA
                     VLSQEQDGIKSHTHSASASSTDLGTKTTSSFDYGTKSTNNTGAHTHSVSGSTNSAGAH
                     THSLANVNTASANSGAGSASTRLSVVHNQNYATSSAGAHTHSLSGTAASAGAHAHTVG
                     IGAHTHSVAIGSHGHTITVNAAGNAENTVKNIAFNYIVRLA"
     gene            3216..3800
                     /locus_tag="BF020_RS26700"
     CDS             3216..3800
                     /locus_tag="BF020_RS26700"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000885598.1"
                     /GO_process="GO:0098004 - virus tail fiber assembly
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="tail fiber assembly protein"
                     /protein_id="WP_001460683.1"
                     /translation="MAFRMSEQPRTIKIYNLLAGTNEFIGEGDAYIPPHTGLPANSTD
                     IAPPDIPAGFVAVFNSDEASWHLVEDHRGKTVYDVASGDALFISELGSLPENVTWLSP
                     EGEYQKWNSTAWVKDTEAEKLFRIREAEETKNSLMQVASEHIAPLQDAVDLEIATEEE
                     TSLLEAWKKYRVLLNRVNTTTAPDIEWPTVPIIE"
     gene            complement(3874..>4890)
                     /locus_tag="BF020_RS26705"
     CDS             complement(3874..>4890)
                     /locus_tag="BF020_RS26705"
                     /EC_number="2.7.7.65"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000586336.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GGDEF domain-containing protein"
                     /protein_id="WP_096858469.1"
                     /translation="IYQKSNDIAIYYLFRQFSFISIIFLAIYSTNVKNKSVLEDKRNI
                     IIVVLSILILFITPFVAKNLSSDNIKYSLNIIQYSLNRHLPTWNIVYTKIISVFWLVL
                     LISSCISIRNYSKIWLCIILISIVSVCNNLILLYFIDKSHPAWYMTKFLELISMIYII
                     STLMYYVFRKLNHANHMAIHDPLTNTYNRRYFIDSLKNISKHHDFSVIMLDIDSFKSI
                     NDKWGHHMGDQVIVMVTRIIKKSIRKEDILGRLGGEEFGIIIKGNTQKLLLSIAERIR
                     KNIEEQCSEKLLSHGPEKITVSIGCFTSKENNLSPSEMLVNADKALYQAKRTGKNKVI
                     IHSK"
CONTIG      join(NJZS01000100.1:1..4890)
//
Feature
Display: FASTA GenBank Help
Details

Supplemental Content

Change region shown

Customize view

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...
External link. Please review our privacy policy.