##gff-version 3
##sequence-region NC_009441 1 20213
# conversion-by bp_genbank2gff3.pl
# organism Flavobacterium johnsoniae UW101
# Note Flavobacterium johnsoniae UW101, complete sequence.
# date 04-APR-2020
NC_009441	GenBank	region	1	20213	.	+	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	2856	.	+	1	ID=FJOH_RS21825;Dbxref=GeneID:31767141;Name=FJOH_RS21825;old_locus_tag=Fjoh_4225
NC_009441	GenBank	mRNA	1	2856	.	+	1	ID=FJOH_RS21825.t01;Parent=FJOH_RS21825
NC_009441	GenBank	CDS	1	2856	.	+	1	ID=FJOH_RS21825.p01;Parent=FJOH_RS21825.t01;Dbxref=GeneID:31767141;Name=FJOH_RS21825;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_007217122.1;old_locus_tag=Fjoh_4225;product=beta-galactosidase;protein_id=WP_012026199.1;transl_table=11;translation=length.951
NC_009441	GenBank	exon	1	2856	.	+	1	Parent=FJOH_RS21825.t01
NC_009441	GenBank	gene	3035	4510	.	+	1	ID=FJOH_RS21830;Dbxref=GeneID:31767142;Name=FJOH_RS21830;old_locus_tag=Fjoh_4226
NC_009441	GenBank	mRNA	3035	4510	.	+	1	ID=FJOH_RS21830.t01;Parent=FJOH_RS21830
NC_009441	GenBank	CDS	3035	4510	.	+	1	ID=FJOH_RS21830.p01;Parent=FJOH_RS21830.t01;Dbxref=GeneID:31767142;Name=FJOH_RS21830;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_007810468.1;old_locus_tag=Fjoh_4226;product=rhamnogalacturonan acetylesterase;protein_id=WP_012026200.1;transl_table=11;translation=length.491
NC_009441	GenBank	exon	3035	4510	.	+	1	Parent=FJOH_RS21830.t01
NC_009441	GenBank	gene	4690	4866	.	-	1	ID=FJOH_RS21835;Dbxref=GeneID:31767143;Name=FJOH_RS21835;old_locus_tag=Fjoh_4227
NC_009441	GenBank	mRNA	4690	4866	.	-	1	ID=FJOH_RS21835.t01;Parent=FJOH_RS21835
NC_009441	GenBank	CDS	4690	4866	.	-	1	ID=FJOH_RS21835.p01;Parent=FJOH_RS21835.t01;Dbxref=GeneID:31767143;Name=FJOH_RS21835;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_012026338.1;old_locus_tag=Fjoh_4227;product=histone H1;protein_id=WP_012026201.1;transl_table=11;translation=length.58
NC_009441	GenBank	exon	4690	4866	.	-	1	Parent=FJOH_RS21835.t01
NC_009441	GenBank	gene	5174	6502	.	-	1	ID=FJOH_RS21840;Dbxref=GeneID:31767144;Name=FJOH_RS21840;old_locus_tag=Fjoh_4228
NC_009441	GenBank	mRNA	5174	6502	.	-	1	ID=FJOH_RS21840.t01;Parent=FJOH_RS21840
NC_009441	GenBank	CDS	5174	6502	.	-	1	ID=FJOH_RS21840.p01;Parent=FJOH_RS21840.t01;Dbxref=GeneID:31767144;Name=FJOH_RS21840;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_020595112.1;old_locus_tag=Fjoh_4228;product=glycoside hydrolase;protein_id=WP_012026202.1;transl_table=11;translation=length.442
NC_009441	GenBank	exon	5174	6502	.	-	1	Parent=FJOH_RS21840.t01
NC_009441	GenBank	gene	6584	7873	.	-	1	ID=FJOH_RS21845;Dbxref=GeneID:31767145;Name=FJOH_RS21845;old_locus_tag=Fjoh_4229
NC_009441	GenBank	mRNA	6584	7873	.	-	1	ID=FJOH_RS21845.t01;Parent=FJOH_RS21845
NC_009441	GenBank	CDS	6584	7873	.	-	1	ID=FJOH_RS21845.p01;Parent=FJOH_RS21845.t01;Dbxref=GeneID:31767145;Name=FJOH_RS21845;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_007810773.1;old_locus_tag=Fjoh_4229;product=DUF4861 domain-containing protein;protein_id=WP_012026203.1;transl_table=11;translation=length.429
NC_009441	GenBank	exon	6584	7873	.	-	1	Parent=FJOH_RS21845.t01
NC_009441	GenBank	gene	7911	8234	.	-	1	ID=FJOH_RS21850;Dbxref=GeneID:31767146;Name=rhaM;locus_tag=FJOH_RS21850;old_locus_tag=Fjoh_4230
NC_009441	GenBank	mRNA	7911	8234	.	-	1	ID=FJOH_RS21850.t01;Parent=FJOH_RS21850
NC_009441	GenBank	CDS	7911	8234	.	-	1	ID=FJOH_RS21850.p01;Parent=FJOH_RS21850.t01;Dbxref=GeneID:31767146;eC_number=5.1.3.32;Name=rhaM;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_012026204.1;locus_tag=FJOH_RS21850;old_locus_tag=Fjoh_4230;product=L-rhamnose mutarotase;protein_id=WP_012026204.1;transl_table=11;translation=length.107
NC_009441	GenBank	exon	7911	8234	.	-	1	Parent=FJOH_RS21850.t01
NC_009441	GenBank	gene	8245	9315	.	-	1	ID=FJOH_RS21855;Dbxref=GeneID:31767147;Name=FJOH_RS21855;old_locus_tag=Fjoh_4231
NC_009441	GenBank	mRNA	8245	9315	.	-	1	ID=FJOH_RS21855.t01;Parent=FJOH_RS21855
NC_009441	GenBank	CDS	8245	9315	.	-	1	ID=FJOH_RS21855.p01;Parent=FJOH_RS21855.t01;Dbxref=GeneID:31767147;Name=FJOH_RS21855;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_007810771.1;old_locus_tag=Fjoh_4231;product=glycosyl hydrolase family 43;protein_id=WP_044048508.1;transl_table=11;translation=length.356
NC_009441	GenBank	exon	8245	9315	.	-	1	Parent=FJOH_RS21855.t01
NC_009441	GenBank	gene	9459	10988	.	-	1	ID=FJOH_RS21860;Dbxref=GeneID:31767148;Name=FJOH_RS21860;old_locus_tag=Fjoh_4232
NC_009441	GenBank	mRNA	9459	10988	.	-	1	ID=FJOH_RS21860.t01;Parent=FJOH_RS21860
NC_009441	GenBank	CDS	9459	10988	.	-	1	ID=FJOH_RS21860.p01;Parent=FJOH_RS21860.t01;Dbxref=GeneID:31767148;Name=FJOH_RS21860;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_009781039.1;old_locus_tag=Fjoh_4232;product=9-O-acetylesterase;protein_id=WP_044047995.1;transl_table=11;translation=length.509
NC_009441	GenBank	exon	9459	10988	.	-	1	Parent=FJOH_RS21860.t01
NC_009441	GenBank	gene	11147	12682	.	-	1	ID=FJOH_RS21865;Dbxref=GeneID:31767149;Name=FJOH_RS21865;old_locus_tag=Fjoh_4233
NC_009441	GenBank	mRNA	11147	12682	.	-	1	ID=FJOH_RS21865.t01;Parent=FJOH_RS21865
NC_009441	GenBank	CDS	11147	12682	.	-	1	ID=FJOH_RS21865.p01;Parent=FJOH_RS21865.t01;Dbxref=GeneID:31767149;Name=FJOH_RS21865;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_007810766.1;old_locus_tag=Fjoh_4233;product=RagB/SusD family nutrient uptake outer membrane protein;protein_id=WP_012026207.1;transl_table=11;translation=length.511
NC_009441	GenBank	exon	11147	12682	.	-	1	Parent=FJOH_RS21865.t01
NC_009441	GenBank	gene	12689	15832	.	-	1	ID=FJOH_RS21870;Dbxref=GeneID:31767150;Name=FJOH_RS21870;old_locus_tag=Fjoh_4234
NC_009441	GenBank	mRNA	12689	15832	.	-	1	ID=FJOH_RS21870.t01;Parent=FJOH_RS21870
NC_009441	GenBank	CDS	12689	15832	.	-	1	ID=FJOH_RS21870.p01;Parent=FJOH_RS21870.t01;Dbxref=GeneID:31767150;Name=FJOH_RS21870;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_007810765.1;old_locus_tag=Fjoh_4234;product=TonB-dependent receptor;protein_id=WP_012026208.1;transl_table=11;translation=length.1047
NC_009441	GenBank	exon	12689	15832	.	-	1	Parent=FJOH_RS21870.t01
NC_009441	GenBank	gene	16276	19071	.	+	1	ID=FJOH_RS21875;Dbxref=GeneID:31767151;Name=FJOH_RS21875;old_locus_tag=Fjoh_4235
NC_009441	GenBank	mRNA	16276	19071	.	+	1	ID=FJOH_RS21875.t01;Parent=FJOH_RS21875
NC_009441	GenBank	CDS	16276	19071	.	+	1	ID=FJOH_RS21875.p01;Parent=FJOH_RS21875.t01;Dbxref=GeneID:31767151;Name=FJOH_RS21875;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_008990317.1;old_locus_tag=Fjoh_4235;product=glycoside hydrolase;protein_id=WP_012026209.1;transl_table=11;translation=length.931
NC_009441	GenBank	exon	16276	19071	.	+	1	Parent=FJOH_RS21875.t01
NC_009441	GenBank	gene	19089	20213	.	+	1	ID=FJOH_RS21880;Dbxref=GeneID:31767152;Name=FJOH_RS21880;old_locus_tag=Fjoh_4236
NC_009441	GenBank	mRNA	19089	20213	.	+	1	ID=FJOH_RS21880.t01;Parent=FJOH_RS21880
NC_009441	GenBank	CDS	19089	20213	.	+	1	ID=FJOH_RS21880.p01;Parent=FJOH_RS21880.t01;Dbxref=GeneID:31767152;Name=FJOH_RS21880;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_009781054.1;old_locus_tag=Fjoh_4236;product=glycoside hydrolase family 88 protein;protein_id=WP_012026210.1;transl_table=11;translation=length.374
NC_009441	GenBank	exon	19089	20213	.	+	1	Parent=FJOH_RS21880.t01