##gff-version 3
##sequence-region NC_009441 1 22274
# conversion-by bp_genbank2gff3.pl
# organism Flavobacterium johnsoniae UW101
# Note Flavobacterium johnsoniae UW101, complete sequence.
# date 04-APR-2020
NC_009441	GenBank	region	1	22274	.	+	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	4737	.	-	1	ID=FJOH_RS23525;Dbxref=GeneID:31767478;Name=chiA;locus_tag=FJOH_RS23525;old_locus_tag=Fjoh_4555
NC_009441	GenBank	mRNA	1	4737	.	-	1	ID=FJOH_RS23525.t01;Parent=FJOH_RS23525
NC_009441	GenBank	CDS	1	4737	.	-	1	ID=FJOH_RS23525.p01;Parent=FJOH_RS23525.t01;Dbxref=GeneID:31767478;Name=chiA;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_012026520.1;locus_tag=FJOH_RS23525;old_locus_tag=Fjoh_4555;product=T9SS-translocated chitinase ChiA;protein_id=WP_012026520.1;transl_table=11;translation=length.1578
NC_009441	GenBank	exon	1	4737	.	-	1	Parent=FJOH_RS23525.t01
NC_009441	GenBank	gene	5201	7267	.	-	1	ID=FJOH_RS23530;Dbxref=GeneID:31767479;Name=FJOH_RS23530;old_locus_tag=Fjoh_4556
NC_009441	GenBank	mRNA	5201	7267	.	-	1	ID=FJOH_RS23530.t01;Parent=FJOH_RS23530
NC_009441	GenBank	CDS	5201	7267	.	-	1	ID=FJOH_RS23530.p01;Parent=FJOH_RS23530.t01;Dbxref=GeneID:31767479;Name=FJOH_RS23530;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_008468856.1;old_locus_tag=Fjoh_4556;product=family 20 glycosylhydrolase;protein_id=WP_012026521.1;transl_table=11;translation=length.688
NC_009441	GenBank	exon	5201	7267	.	-	1	Parent=FJOH_RS23530.t01
NC_009441	GenBank	gene	7425	9365	.	-	1	ID=FJOH_RS23535;Dbxref=GeneID:31767480;Name=nagB;locus_tag=FJOH_RS23535;old_locus_tag=Fjoh_4557
NC_009441	GenBank	mRNA	7425	9365	.	-	1	ID=FJOH_RS23535.t01;Parent=FJOH_RS23535
NC_009441	GenBank	CDS	7425	9365	.	-	1	ID=FJOH_RS23535.p01;Parent=FJOH_RS23535.t01;Dbxref=GeneID:31767480;eC_number=3.5.99.6;Name=nagB;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_017497631.1;locus_tag=FJOH_RS23535;old_locus_tag=Fjoh_4557;product=glucosamine-6-phosphate deaminase;protein_id=WP_044048577.1;transl_table=11;translation=length.646
NC_009441	GenBank	exon	7425	9365	.	-	1	Parent=FJOH_RS23535.t01
NC_009441	GenBank	gene	9482	11062	.	-	1	ID=FJOH_RS23540;Dbxref=GeneID:31767481;Name=FJOH_RS23540;old_locus_tag=Fjoh_4558
NC_009441	GenBank	mRNA	9482	11062	.	-	1	ID=FJOH_RS23540.t01;Parent=FJOH_RS23540
NC_009441	GenBank	CDS	9482	11062	.	-	1	ID=FJOH_RS23540.p01;Parent=FJOH_RS23540.t01;Dbxref=GeneID:31767481;Name=FJOH_RS23540;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_012026523.1;old_locus_tag=Fjoh_4558;product=SusD/RagB family nutrient-binding outer membrane lipoprotein;protein_id=WP_012026523.1;transl_table=11;translation=length.526
NC_009441	GenBank	exon	9482	11062	.	-	1	Parent=FJOH_RS23540.t01
NC_009441	GenBank	gene	11073	14105	.	-	1	ID=FJOH_RS23545;Dbxref=GeneID:31767482;Name=FJOH_RS23545;old_locus_tag=Fjoh_4559
NC_009441	GenBank	mRNA	11073	14105	.	-	1	ID=FJOH_RS23545.t01;Parent=FJOH_RS23545
NC_009441	GenBank	CDS	11073	14105	.	-	1	ID=FJOH_RS23545.p01;Parent=FJOH_RS23545.t01;Dbxref=GeneID:31767482;Name=FJOH_RS23545;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_007805266.1;old_locus_tag=Fjoh_4559;product=SusC/RagA family TonB-linked outer membrane protein;protein_id=WP_012026524.1;transl_table=11;translation=length.1010
NC_009441	GenBank	exon	11073	14105	.	-	1	Parent=FJOH_RS23545.t01
NC_009441	GenBank	gene	14435	15457	.	-	1	ID=FJOH_RS23550;Dbxref=GeneID:31767483;Name=FJOH_RS23550;old_locus_tag=Fjoh_4560
NC_009441	GenBank	mRNA	14435	15457	.	-	1	ID=FJOH_RS23550.t01;Parent=FJOH_RS23550
NC_009441	GenBank	CDS	14435	15457	.	-	1	ID=FJOH_RS23550.p01;Parent=FJOH_RS23550.t01;Dbxref=GeneID:31767483;Name=FJOH_RS23550;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: protein motif:HMM:NF012907.1;old_locus_tag=Fjoh_4560;product=glycoside hydrolase;protein_id=WP_012026525.1;transl_table=11;translation=length.340
NC_009441	GenBank	exon	14435	15457	.	-	1	Parent=FJOH_RS23550.t01
NC_009441	GenBank	gene	15543	17060	.	-	1	ID=FJOH_RS23555;Dbxref=GeneID:31767484;Name=FJOH_RS23555;old_locus_tag=Fjoh_4561
NC_009441	GenBank	mRNA	15543	17060	.	-	1	ID=FJOH_RS23555.t01;Parent=FJOH_RS23555
NC_009441	GenBank	CDS	15543	17060	.	-	1	ID=FJOH_RS23555.p01;Parent=FJOH_RS23555.t01;Dbxref=GeneID:31767484;Name=FJOH_RS23555;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: protein motif:HMM:NF024181.1;old_locus_tag=Fjoh_4561;product=SusD/RagB family nutrient-binding outer membrane lipoprotein;protein_id=WP_012026526.1;transl_table=11;translation=length.505
NC_009441	GenBank	exon	15543	17060	.	-	1	Parent=FJOH_RS23555.t01
NC_009441	GenBank	gene	17072	20260	.	-	1	ID=FJOH_RS23560;Dbxref=GeneID:31767485;Name=FJOH_RS23560;old_locus_tag=Fjoh_4562
NC_009441	GenBank	mRNA	17072	20260	.	-	1	ID=FJOH_RS23560.t01;Parent=FJOH_RS23560
NC_009441	GenBank	CDS	17072	20260	.	-	1	ID=FJOH_RS23560.p01;Parent=FJOH_RS23560.t01;Dbxref=GeneID:31767485;Name=FJOH_RS23560;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: protein motif:HMM:TIGR04056.1;old_locus_tag=Fjoh_4562;product=SusC/RagA family TonB-linked outer membrane protein;protein_id=WP_052295212.1;transl_table=11;translation=length.1062
NC_009441	GenBank	exon	17072	20260	.	-	1	Parent=FJOH_RS23560.t01
NC_009441	GenBank	gene	20531	21583	.	+	1	ID=FJOH_RS23565;Dbxref=GeneID:31767486;Name=FJOH_RS23565;old_locus_tag=Fjoh_4563
NC_009441	GenBank	mRNA	20531	21583	.	+	1	ID=FJOH_RS23565.t01;Parent=FJOH_RS23565
NC_009441	GenBank	CDS	20531	21583	.	+	1	ID=FJOH_RS23565.p01;Parent=FJOH_RS23565.t01;Dbxref=GeneID:31767486;Name=FJOH_RS23565;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_007805268.1;old_locus_tag=Fjoh_4563;product=histidine kinase;protein_id=WP_012026528.1;transl_table=11;translation=length.350
NC_009441	GenBank	exon	20531	21583	.	+	1	Parent=FJOH_RS23565.t01
NC_009441	GenBank	gene	21573	22274	.	+	1	ID=FJOH_RS23570;Dbxref=GeneID:31767487;Name=FJOH_RS23570;old_locus_tag=Fjoh_4564
NC_009441	GenBank	mRNA	21573	22274	.	+	1	ID=FJOH_RS23570.t01;Parent=FJOH_RS23570
NC_009441	GenBank	CDS	21573	22274	.	+	1	ID=FJOH_RS23570.p01;Parent=FJOH_RS23570.t01;Dbxref=GeneID:31767487;Name=FJOH_RS23570;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_017497635.1;old_locus_tag=Fjoh_4564;product=response regulator transcription factor;protein_id=WP_012026529.1;transl_table=11;translation=length.233
NC_009441	GenBank	exon	21573	22274	.	+	1	Parent=FJOH_RS23570.t01