##gff-version 3
##sequence-region NC_009441 1 33833
# conversion-by bp_genbank2gff3.pl
# organism Flavobacterium johnsoniae UW101
# Note Flavobacterium johnsoniae UW101, complete sequence.
# date 04-APR-2020
NC_009441	GenBank	region	1	33833	.	+	1	ID=NC_009441;Dbxref=BioProject:PRJNA224116,ATCC:17061,taxon:376686;Name=NC_009441;Note=Flavobacterium johnsoniae UW101%2C complete sequence.,REFSEQ INFORMATION: The reference sequence was derived from CP000685. URL -- http://www.jgi.doe.gov JGI Project ID: 4000268 Source DNA available from Mark McBride (mcbride@uwm.edu) Bacteria available from ATCC: ATCC 17061 Contacts: Mark McBride (mcbride@uwm.edu) Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-PGF Finished microbial genomes have been curated to close all gaps with greater than 98%25 coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. It is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID%3D10506376). 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-Annotation-Data-START## Annotation Provider :: NCBI RefSeq Annotation Date :: 04/04/2020 11:53:28 Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method :: Best-placed reference protein set,GeneMarkS-2+ Annotation Software revision :: 4.11 Features Annotated :: Gene,CDS,rRNA,tRNA,ncRNA,repeat_region Genes (total) :: 5,234 CDSs (total) :: 5,151 Genes (coding) :: 5,091 CDSs (with protein) :: 5,091 Genes (RNA) :: 83 rRNAs :: 6,6,6 (5S,16S,23S) complete rRNAs :: 6,6,6 (5S,16S,23S) tRNAs :: 62 ncRNAs :: 3 Pseudo Genes (total) :: 60 CDSs (without protein) :: 60 Pseudo Genes (ambiguous residues) :: 0 of 60 Pseudo Genes (frameshifted) :: 22 of 60 Pseudo Genes (incomplete) :: 34 of 60 Pseudo Genes (internal stop) :: 8 of 60 Pseudo Genes (multiple problems) :: 4 of 60 ##Genome-Annotation-Data-END## COMPLETENESS: full length. ;comment1=REFSEQ INFORMATION: The reference sequence was derived from CP000685. URL -- http://www.jgi.doe.gov JGI Project ID: 4000268 Source DNA available from Mark McBride (mcbride@uwm.edu) Bacteria available from ATCC: ATCC 17061 Contacts: Mark McBride (mcbride@uwm.edu) Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-PGF Finished microbial genomes have been curated to close all gaps with greater than 98%25 coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. It is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID%3D10506376). 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-Annotation-Data-START## Annotation Provider :: NCBI RefSeq Annotation Date :: 04/04/2020 11:53:28 Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method :: Best-placed reference protein set%3B GeneMarkS-2+ Annotation Software revision :: 4.11 Features Annotated :: Gene%3B CDS%3B rRNA%3B tRNA%3B ncRNA%3B repeat_region Genes (total) :: 5%2C234 CDSs (total) :: 5%2C151 Genes (coding) :: 5%2C091 CDSs (with protein) :: 5%2C091 Genes (RNA) :: 83 rRNAs :: 6%2C 6%2C 6 (5S%2C 16S%2C 23S) complete rRNAs :: 6%2C 6%2C 6 (5S%2C 16S%2C 23S) tRNAs :: 62 ncRNAs :: 3 Pseudo Genes (total) :: 60 CDSs (without protein) :: 60 Pseudo Genes (ambiguous residues) :: 0 of 60 Pseudo Genes (frameshifted) :: 22 of 60 Pseudo Genes (incomplete) :: 34 of 60 Pseudo Genes (internal stop) :: 8 of 60 Pseudo Genes (multiple problems) :: 4 of 60 ##Genome-Annotation-Data-END## COMPLETENESS: full length. ;date=04-APR-2020;mol_type=genomic DNA;organism=Flavobacterium johnsoniae UW101;strain=UW101%3B ATCC 17061;type_material=type strain of Flavobacterium johnsoniae
NC_009441	GenBank	gene	1	1494	.	-	1	ID=FJOH_RS20040;Dbxref=GeneID:31766791;Name=FJOH_RS20040;old_locus_tag=Fjoh_3870
NC_009441	GenBank	mRNA	1	1494	.	-	1	ID=FJOH_RS20040.t01;Parent=FJOH_RS20040
NC_009441	GenBank	CDS	1	1494	.	-	1	ID=FJOH_RS20040.p01;Parent=FJOH_RS20040.t01;Dbxref=GeneID:31766791;Name=FJOH_RS20040;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_008467826.1;old_locus_tag=Fjoh_3870;product=RagB/SusD family nutrient uptake outer membrane protein;protein_id=WP_044047943.1;transl_table=11;translation=length.497
NC_009441	GenBank	exon	1	1494	.	-	1	Parent=FJOH_RS20040.t01
NC_009441	GenBank	gene	1506	4514	.	-	1	ID=FJOH_RS20045;Dbxref=GeneID:31766792;Name=FJOH_RS20045;old_locus_tag=Fjoh_3871
NC_009441	GenBank	mRNA	1506	4514	.	-	1	ID=FJOH_RS20045.t01;Parent=FJOH_RS20045
NC_009441	GenBank	CDS	1506	4514	.	-	1	ID=FJOH_RS20045.p01;Parent=FJOH_RS20045.t01;Dbxref=GeneID:31766792;Name=FJOH_RS20045;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_008467827.1;old_locus_tag=Fjoh_3871;product=TonB-dependent receptor;protein_id=WP_012025848.1;transl_table=11;translation=length.1002
NC_009441	GenBank	exon	1506	4514	.	-	1	Parent=FJOH_RS20045.t01
NC_009441	GenBank	gene	5066	9187	.	-	1	ID=FJOH_RS20050;Dbxref=GeneID:31766793;Name=FJOH_RS20050;old_locus_tag=Fjoh_3872
NC_009441	GenBank	mRNA	5066	9187	.	-	1	ID=FJOH_RS20050.t01;Parent=FJOH_RS20050
NC_009441	GenBank	CDS	5066	9187	.	-	1	ID=FJOH_RS20050.p01;Parent=FJOH_RS20050.t01;Dbxref=GeneID:31766793;Name=FJOH_RS20050;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_007807996.1;old_locus_tag=Fjoh_3872;product=response regulator;protein_id=WP_012025849.1;transl_table=11;translation=length.1373
NC_009441	GenBank	exon	5066	9187	.	-	1	Parent=FJOH_RS20050.t01
NC_009441	GenBank	gene	9282	11225	.	-	1	ID=FJOH_RS20055;Dbxref=GeneID:31766794;Name=FJOH_RS20055;old_locus_tag=Fjoh_3873
NC_009441	GenBank	mRNA	9282	11225	.	-	1	ID=FJOH_RS20055.t01;Parent=FJOH_RS20055
NC_009441	GenBank	CDS	9282	11225	.	-	1	ID=FJOH_RS20055.p01;Parent=FJOH_RS20055.t01;Dbxref=GeneID:31766794;Name=FJOH_RS20055;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_008467828.1;old_locus_tag=Fjoh_3873;product=glycoside hydrolase family 97 protein;protein_id=WP_012025850.1;transl_table=11;translation=length.647
NC_009441	GenBank	exon	9282	11225	.	-	1	Parent=FJOH_RS20055.t01
NC_009441	GenBank	gene	11286	13880	.	-	1	ID=FJOH_RS20060;Dbxref=GeneID:31766795;Name=FJOH_RS20060;old_locus_tag=Fjoh_3874
NC_009441	GenBank	mRNA	11286	13880	.	-	1	ID=FJOH_RS20060.t01;Parent=FJOH_RS20060
NC_009441	GenBank	CDS	11286	13880	.	-	1	ID=FJOH_RS20060.p01;Parent=FJOH_RS20060.t01;Dbxref=GeneID:31766795;eC_number=3.2.1.21;Name=FJOH_RS20060;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_009130085.1;old_locus_tag=Fjoh_3874;product=glycosyl hydrolase family 3;protein_id=WP_012025851.1;transl_table=11;translation=length.864
NC_009441	GenBank	exon	11286	13880	.	-	1	Parent=FJOH_RS20060.t01
NC_009441	GenBank	gene	13923	15479	.	-	1	ID=FJOH_RS20065;Dbxref=GeneID:31766796;Name=FJOH_RS20065;old_locus_tag=Fjoh_3875
NC_009441	GenBank	mRNA	13923	15479	.	-	1	ID=FJOH_RS20065.t01;Parent=FJOH_RS20065
NC_009441	GenBank	CDS	13923	15479	.	-	1	ID=FJOH_RS20065.p01;Parent=FJOH_RS20065.t01;Dbxref=GeneID:31766796;Name=FJOH_RS20065;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_009280345.1;old_locus_tag=Fjoh_3875;product=glycosyl hydrolase 43 family protein;protein_id=WP_012025852.1;transl_table=11;translation=length.518
NC_009441	GenBank	exon	13923	15479	.	-	1	Parent=FJOH_RS20065.t01
NC_009441	GenBank	gene	15512	17731	.	-	1	ID=FJOH_RS20070;Dbxref=GeneID:31766797;Name=FJOH_RS20070;old_locus_tag=Fjoh_3876
NC_009441	GenBank	mRNA	15512	17731	.	-	1	ID=FJOH_RS20070.t01;Parent=FJOH_RS20070
NC_009441	GenBank	CDS	15512	17731	.	-	1	ID=FJOH_RS20070.p01;Parent=FJOH_RS20070.t01;Dbxref=GeneID:31766797;Name=FJOH_RS20070;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_009280343.1;old_locus_tag=Fjoh_3876;product=glycosyl hydrolase;protein_id=WP_123875749.1;transl_table=11;translation=length.739
NC_009441	GenBank	exon	15512	17731	.	-	1	Parent=FJOH_RS20070.t01
NC_009441	GenBank	gene	17828	20353	.	-	1	ID=FJOH_RS20075;Dbxref=GeneID:31766798;Name=FJOH_RS20075;old_locus_tag=Fjoh_3877
NC_009441	GenBank	mRNA	17828	20353	.	-	1	ID=FJOH_RS20075.t01;Parent=FJOH_RS20075
NC_009441	GenBank	CDS	17828	20353	.	-	1	ID=FJOH_RS20075.p01;Parent=FJOH_RS20075.t01;Dbxref=GeneID:31766798;Name=FJOH_RS20075;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_007215483.1;old_locus_tag=Fjoh_3877;product=glycosyhydrolase;protein_id=WP_012025854.1;transl_table=11;translation=length.841
NC_009441	GenBank	exon	17828	20353	.	-	1	Parent=FJOH_RS20075.t01
NC_009441	GenBank	pseudogenic_exon	20427	22058	.	-	1	ID=FJOH_RS26660;Dbxref=GeneID:31768091;Name=FJOH_RS26660;Note=incomplete%3B partial in the middle of a contig%3B missing C-terminus%3B Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_013070521.1;old_locus_tag=Fjoh_3878;product=esterase;pseudo=_no_value;transl_table=11
NC_009441	GenBank	pseudogene	20427	22058	.	-	1	ID=FJOH_RS26660.pseudogene;Alias=FJOH_RS26660;Dbxref=GeneID:31768091;Name=FJOH_RS26660;old_locus_tag=Fjoh_3878;pseudo=_no_value
NC_009441	GenBank	gene	22110	23354	.	-	1	ID=FJOH_RS20085;Dbxref=GeneID:31766799;Name=FJOH_RS20085;old_locus_tag=Fjoh_3879
NC_009441	GenBank	mRNA	22110	23354	.	-	1	ID=FJOH_RS20085.t01;Parent=FJOH_RS20085
NC_009441	GenBank	CDS	22110	23354	.	-	1	ID=FJOH_RS20085.p01;Parent=FJOH_RS20085.t01;Dbxref=GeneID:31766799;Name=FJOH_RS20085;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_008467835.1;old_locus_tag=Fjoh_3879;product=SGNH/GDSL hydrolase family protein;protein_id=WP_012025856.1;transl_table=11;translation=length.414
NC_009441	GenBank	exon	22110	23354	.	-	1	Parent=FJOH_RS20085.t01
NC_009441	GenBank	gene	23410	25125	.	-	1	ID=FJOH_RS20090;Dbxref=GeneID:31766800;Name=FJOH_RS20090;old_locus_tag=Fjoh_3880
NC_009441	GenBank	mRNA	23410	25125	.	-	1	ID=FJOH_RS20090.t01;Parent=FJOH_RS20090
NC_009441	GenBank	CDS	23410	25125	.	-	1	ID=FJOH_RS20090.p01;Parent=FJOH_RS20090.t01;Dbxref=GeneID:31766800;Name=FJOH_RS20090;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_015266466.1;old_locus_tag=Fjoh_3880;product=glycoside hydrolase family 43 protein;protein_id=WP_012025857.1;transl_table=11;translation=length.571
NC_009441	GenBank	exon	23410	25125	.	-	1	Parent=FJOH_RS20090.t01
NC_009441	GenBank	gene	25271	27211	.	-	1	ID=FJOH_RS20095;Dbxref=GeneID:31766801;Name=FJOH_RS20095;old_locus_tag=Fjoh_3881
NC_009441	GenBank	mRNA	25271	27211	.	-	1	ID=FJOH_RS20095.t01;Parent=FJOH_RS20095
NC_009441	GenBank	CDS	25271	27211	.	-	1	ID=FJOH_RS20095.p01;Parent=FJOH_RS20095.t01;Dbxref=GeneID:31766801;Name=FJOH_RS20095;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_008467838.1;old_locus_tag=Fjoh_3881;product=RagB/SusD family nutrient uptake outer membrane protein;protein_id=WP_012025858.1;transl_table=11;translation=length.646
NC_009441	GenBank	exon	25271	27211	.	-	1	Parent=FJOH_RS20095.t01
NC_009441	GenBank	gene	27224	30316	.	-	1	ID=FJOH_RS20100;Dbxref=GeneID:31766802;Name=FJOH_RS20100;old_locus_tag=Fjoh_3882
NC_009441	GenBank	mRNA	27224	30316	.	-	1	ID=FJOH_RS20100.t01;Parent=FJOH_RS20100
NC_009441	GenBank	CDS	27224	30316	.	-	1	ID=FJOH_RS20100.p01;Parent=FJOH_RS20100.t01;Dbxref=GeneID:31766802;Name=FJOH_RS20100;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_008467839.1;old_locus_tag=Fjoh_3882;product=TonB-dependent receptor;protein_id=WP_012025859.1;transl_table=11;translation=length.1030
NC_009441	GenBank	exon	27224	30316	.	-	1	Parent=FJOH_RS20100.t01
NC_009441	GenBank	gene	31206	33833	.	+	1	ID=FJOH_RS20105;Dbxref=GeneID:31766803;Name=FJOH_RS20105;old_locus_tag=Fjoh_3883
NC_009441	GenBank	mRNA	31206	33833	.	+	1	ID=FJOH_RS20105.t01;Parent=FJOH_RS20105
NC_009441	GenBank	CDS	31206	33833	.	+	1	ID=FJOH_RS20105.p01;Parent=FJOH_RS20105.t01;Dbxref=GeneID:31766803;Name=FJOH_RS20105;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_008467845.1;old_locus_tag=Fjoh_3883;product=glycoside hydrolase family 3 protein;protein_id=WP_012025860.1;transl_table=11;translation=length.875
NC_009441	GenBank	exon	31206	33833	.	+	1	Parent=FJOH_RS20105.t01