##gff-version 3 ##sequence-region NZ_GL882612 1 12502 # conversion-by bp_genbank2gff3.pl # organism Bacteroides fluxus YIT 12057 # Note Bacteroides fluxus YIT 12057 Scfld11, whole genome shotgun sequence. # date 20-JUN-2021 NZ_GL882612 GenBank region 1 12502 . + 1 ID=NZ_GL882612;Dbxref=BioProject:PRJNA224116,HMP:9446,taxon:763034;Name=NZ_GL882612;Note=Bacteroides fluxus YIT 12057 Scfld11%2C whole genome shotgun sequence.,REFSEQ INFORMATION: The reference sequence is identical to GL882612.1. Bacteroides fluxus YIT 12057 (No 16S rRNA gene available) is a member of the Bacteroides division of the domain bacteria and has been isolated from the gut. This is a reference genome for the Human Microbiome Project. This project is co-owned with the Human Microbiome Project DACC. Bacteria and source DNA were provided by Masami Morotomi,PhD (Yakult Central Institute for Microbiological Research,1796 Yaho,Kunitachi,186-8650 Tokyo,Japan). Isolation of bacteria and DNA preparation were funded by the Yakult Central Institute for Microbiological Research. Coding sequences were predicted using GeneMark v3.3 and Glimmer2 v2.13. Intergenic regions not spanned by GeneMark and Glimmer2 were blasted against NCBI's non-redundant (NR) database and predictions generated based on protein alignments. tRNA genes were determined using tRNAscan-SE 1.23 and non-coding RNA genes by RNAmmer-1.2 and Rfam v8.0. Gene names are generated at the contig level and may not necessarily reflect any known order or orientation between contigs. The National Human Genome Research Institute (NHGRI),National Institutes of Health (NIH) is funding the sequence characterization of the Bacteroides fluxus YIT12057 genome. 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/ \n##Genome-Assembly-Data-START##\nFinishing Goal :: High-Quality Draft\nCurrent Finishing Status :: High-Quality Draft\nAssembly Method :: Velvet v. 0.7.57\nGenome Coverage :: 150.7x\nSequencing Technology :: Illumina\n##Genome-Assembly-Data-END##;comment1=REFSEQ INFORMATION: The reference sequence is identical to GL882612.1. Bacteroides fluxus YIT 12057 (No 16S rRNA gene available) is a member of the Bacteroides division of the domain bacteria and has been isolated from the gut. This is a reference genome for the Human Microbiome Project. This project is co-owned with the Human Microbiome Project DACC. Bacteria and source DNA were provided by Masami Morotomi%2C PhD (Yakult Central Institute for Microbiological Research%2C 1796 Yaho%2C Kunitachi%2C 186-8650 Tokyo%2C Japan). Isolation of bacteria and DNA preparation were funded by the Yakult Central Institute for Microbiological Research. Coding sequences were predicted using GeneMark v3.3 and Glimmer2 v2.13. Intergenic regions not spanned by GeneMark and Glimmer2 were blasted against NCBI's non-redundant (NR) database and predictions generated based on protein alignments. tRNA genes were determined using tRNAscan-SE 1.23 and non-coding RNA genes by RNAmmer-1.2 and Rfam v8.0. Gene names are generated at the contig level and may not necessarily reflect any known order or orientation between contigs. The National Human Genome Research Institute (NHGRI)%2C National Institutes of Health (NIH) is funding the sequence characterization of the Bacteroides fluxus YIT12057 genome. 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/ \n##Genome-Assembly-Data-START##\nFinishing Goal :: High-Quality Draft\nCurrent Finishing Status :: High-Quality Draft\nAssembly Method :: Velvet v. 0.7.57\nGenome Coverage :: 150.7x\nSequencing Technology :: Illumina\n##Genome-Assembly-Data-END##;date=20-JUN-2021;host=Homo sapiens;isolation_source=biological product [ENVO:02000043];mol_type=genomic DNA;organism=Bacteroides fluxus YIT 12057;strain=YIT 12057;submitter_seqid=Scfld11;type_material=type strain of Bacteroides fluxus NZ_GL882612 GenBank gene 1 2253 . - 1 ID=HMPREF9446_RS02735;Name=bglX;locus_tag=HMPREF9446_RS02735;old_locus_tag=HMPREF9446_00611 NZ_GL882612 GenBank mRNA 1 2253 . - 1 ID=HMPREF9446_RS02735;Parent=HMPREF9446_RS02735 NZ_GL882612 GenBank CDS 1 2253 . - 1 ID=HMPREF9446_RS02735;Parent=HMPREF9446_RS02735;eC_number=3.2.1.21;Name=bglX;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_005826828.1;locus_tag=HMPREF9446_RS02735;old_locus_tag=HMPREF9446_00611;product=beta-glucosidase BglX;protein_id=WP_009123870.1;transl_table=11;translation=length.750 NZ_GL882612 GenBank exon 1 2253 . - 1 Parent=HMPREF9446_RS02735 NZ_GL882612 GenBank gene 2256 3548 . - 1 ID=HMPREF9446_RS02740;Name=HMPREF9446_RS02740;old_locus_tag=HMPREF9446_00612 NZ_GL882612 GenBank mRNA 2256 3548 . - 1 ID=HMPREF9446_RS02740;Parent=HMPREF9446_RS02740 NZ_GL882612 GenBank CDS 2256 3548 . - 1 ID=HMPREF9446_RS02740;Parent=HMPREF9446_RS02740;Name=HMPREF9446_RS02740;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_007484610.1;old_locus_tag=HMPREF9446_00612;product=hypothetical protein;protein_id=WP_039968351.1;transl_table=11;translation=length.430 NZ_GL882612 GenBank exon 2256 3548 . - 1 Parent=HMPREF9446_RS02740 NZ_GL882612 GenBank gene 3688 4560 . - 1 ID=HMPREF9446_RS02745;Name=HMPREF9446_RS02745;old_locus_tag=HMPREF9446_00613 NZ_GL882612 GenBank mRNA 3688 4560 . - 1 ID=HMPREF9446_RS02745;Parent=HMPREF9446_RS02745 NZ_GL882612 GenBank CDS 3688 4560 . - 1 ID=HMPREF9446_RS02745;Parent=HMPREF9446_RS02745;Name=HMPREF9446_RS02745;Note=Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.;codon_start=1;inference=COORDINATES: ab initio prediction:GeneMarkS-2+;old_locus_tag=HMPREF9446_00613;product=PKD domain-containing protein;protein_id=WP_009123872.1;transl_table=11;translation=length.290 NZ_GL882612 GenBank exon 3688 4560 . - 1 Parent=HMPREF9446_RS02745 NZ_GL882612 GenBank gene 4590 6122 . - 1 ID=HMPREF9446_RS02750;Name=HMPREF9446_RS02750;old_locus_tag=HMPREF9446_00614 NZ_GL882612 GenBank mRNA 4590 6122 . - 1 ID=HMPREF9446_RS02750;Parent=HMPREF9446_RS02750 NZ_GL882612 GenBank CDS 4590 6122 . - 1 ID=HMPREF9446_RS02750;Parent=HMPREF9446_RS02750;Name=HMPREF9446_RS02750;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_013443772.1;old_locus_tag=HMPREF9446_00614;product=RagB/SusD family nutrient uptake outer membrane protein;protein_id=WP_009123873.1;transl_table=11;translation=length.510 NZ_GL882612 GenBank exon 4590 6122 . - 1 Parent=HMPREF9446_RS02750 NZ_GL882612 GenBank gene 6144 9326 . - 1 ID=HMPREF9446_RS02755;Name=HMPREF9446_RS02755;old_locus_tag=HMPREF9446_00615 NZ_GL882612 GenBank mRNA 6144 9326 . - 1 ID=HMPREF9446_RS02755;Parent=HMPREF9446_RS02755 NZ_GL882612 GenBank CDS 6144 9326 . - 1 ID=HMPREF9446_RS02755;Parent=HMPREF9446_RS02755;Name=HMPREF9446_RS02755;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_016273345.1;old_locus_tag=HMPREF9446_00615;product=TonB-dependent receptor;protein_id=WP_009123874.1;transl_table=11;translation=length.1060 NZ_GL882612 GenBank exon 6144 9326 . - 1 Parent=HMPREF9446_RS02755 NZ_GL882612 GenBank gene 9617 12502 . - 1 ID=HMPREF9446_RS02760;Name=HMPREF9446_RS02760;old_locus_tag=HMPREF9446_00616 NZ_GL882612 GenBank mRNA 9617 12502 . - 1 ID=HMPREF9446_RS02760;Parent=HMPREF9446_RS02760 NZ_GL882612 GenBank CDS 9617 12502 . - 1 ID=HMPREF9446_RS02760;Parent=HMPREF9446_RS02760;Name=HMPREF9446_RS02760;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_009036780.1;old_locus_tag=HMPREF9446_00616;product=transcriptional regulator;protein_id=WP_039968353.1;transl_table=11;translation=length.961 NZ_GL882612 GenBank exon 9617 12502 . - 1 Parent=HMPREF9446_RS02760