##gff-version 3
##sequence-region NC_013132 1 13741
# conversion-by bp_genbank2gff3.pl
# organism Chitinophaga pinensis DSM 2588
# Note Chitinophaga pinensis DSM 2588, complete genome.
# date 26-AUG-2019
NC_013132	GenBank	region	1	13741	.	+	1	ID=NC_013132;Dbxref=BioProject:PRJNA224116,taxon:485918;Name=NC_013132;Note=Chitinophaga pinensis DSM 2588%2C complete genome.,REFSEQ INFORMATION: The reference sequence was derived from CP001699. URL -- http://www.jgi.doe.gov JGI Project ID: 4082984 Source DNA and organism available from Hans-Peter Klenk at the German Collection of Microorganisms and Cell Cultures (DSMZ) (hans-peter.klenk@dsmz.de) Contacts: Jonathan A. Eisen (jaeisen@ucdavis.edu) David Bruce (microbe@cuba.jgi-psf.org) Whole genome sequencing and draft assembly at JGI-PGF Finishing done by JGI-LANL Annotation by JGI-ORNL and JGI-PGF 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 :: 08/26/2019 00:28:39 Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method :: Best-placed reference protein set,GeneMarkS-2+ Annotation Software revision :: 4.9 Features Annotated :: Gene,CDS,rRNA,tRNA,ncRNA,repeat_region Genes (total) :: 7,171 CDSs (total) :: 7,077 Genes (coding) :: 7,009 CDSs (with protein) :: 7,009 Genes (RNA) :: 94 rRNAs :: 6,6,6 (5S,16S,23S) complete rRNAs :: 6,6,6 (5S,16S,23S) tRNAs :: 73 ncRNAs :: 3 Pseudo Genes (total) :: 68 CDSs (without protein) :: 68 Pseudo Genes (ambiguous residues) :: 0 of 68 Pseudo Genes (frameshifted) :: 19 of 68 Pseudo Genes (incomplete) :: 47 of 68 Pseudo Genes (internal stop) :: 11 of 68 Pseudo Genes (multiple problems) :: 8 of 68 ##Genome-Annotation-Data-END## ##Metadata-START## Organism Display Name :: Chitinophaga pinensis UQM 2034,DSM 2588 Culture Collection ID :: DSM 2588,ATCC 43595,LMG 13176,UQM 2034 GOLD Stamp ID :: Gi02244 Funding Program :: DOE-GEBA 2007 Gene Calling Method :: Prodigal Isolation Site :: Pine litter in Australia Isolation Country :: Australia Oxygen Requirement :: Aerobe Cell Shape :: Rod-shaped Motility :: Motile Sporulation :: Nonsporulating Temperature Range :: Mesophile Temperature Optimum :: 23 - 24C pH :: 7 Gram Staining :: gram- Biotic Relationship :: Free living Diseases :: None Phenotypes :: Biomass degrader,Chitin degradation Energy Source :: Chemoorganotroph ##Metadata-END## COMPLETENESS: full length. ,type strain of Chitinophaga pinensis;comment1=REFSEQ INFORMATION: The reference sequence was derived from CP001699. URL -- http://www.jgi.doe.gov JGI Project ID: 4082984 Source DNA and organism available from Hans-Peter Klenk at the German Collection of Microorganisms and Cell Cultures (DSMZ) (hans-peter.klenk@dsmz.de) Contacts: Jonathan A. Eisen (jaeisen@ucdavis.edu) David Bruce (microbe@cuba.jgi-psf.org) Whole genome sequencing and draft assembly at JGI-PGF Finishing done by JGI-LANL Annotation by JGI-ORNL and JGI-PGF 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 :: 08/26/2019 00:28:39 Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method :: Best-placed reference protein set%3B GeneMarkS-2+ Annotation Software revision :: 4.9 Features Annotated :: Gene%3B CDS%3B rRNA%3B tRNA%3B ncRNA%3B repeat_region Genes (total) :: 7%2C171 CDSs (total) :: 7%2C077 Genes (coding) :: 7%2C009 CDSs (with protein) :: 7%2C009 Genes (RNA) :: 94 rRNAs :: 6%2C 6%2C 6 (5S%2C 16S%2C 23S) complete rRNAs :: 6%2C 6%2C 6 (5S%2C 16S%2C 23S) tRNAs :: 73 ncRNAs :: 3 Pseudo Genes (total) :: 68 CDSs (without protein) :: 68 Pseudo Genes (ambiguous residues) :: 0 of 68 Pseudo Genes (frameshifted) :: 19 of 68 Pseudo Genes (incomplete) :: 47 of 68 Pseudo Genes (internal stop) :: 11 of 68 Pseudo Genes (multiple problems) :: 8 of 68 ##Genome-Annotation-Data-END## ##Metadata-START## Organism Display Name :: Chitinophaga pinensis UQM 2034%2C DSM 2588 Culture Collection ID :: DSM 2588%2C ATCC 43595%2C LMG 13176%2C UQM 2034 GOLD Stamp ID :: Gi02244 Funding Program :: DOE-GEBA 2007 Gene Calling Method :: Prodigal Isolation Site :: Pine litter in Australia Isolation Country :: Australia Oxygen Requirement :: Aerobe Cell Shape :: Rod-shaped Motility :: Motile Sporulation :: Nonsporulating Temperature Range :: Mesophile Temperature Optimum :: 23 - 24C pH :: 7 Gram Staining :: gram- Biotic Relationship :: Free living Diseases :: None Phenotypes :: Biomass degrader%2C Chitin degradation Energy Source :: Chemoorganotroph ##Metadata-END## COMPLETENESS: full length. ;date=26-AUG-2019;mol_type=genomic DNA;organism=Chitinophaga pinensis DSM 2588;strain=DSM 2588;type_material=type strain of Chitinophaga pinensis
NC_013132	GenBank	gene	1	3420	.	+	1	ID=CPIN_RS15535;Name=CPIN_RS15535;old_locus_tag=Cpin_3123
NC_013132	GenBank	mRNA	1	3420	.	+	1	ID=CPIN_RS15535.t01;Parent=CPIN_RS15535
NC_013132	GenBank	CDS	1	3420	.	+	1	ID=CPIN_RS15535.p01;Parent=CPIN_RS15535.t01;Name=CPIN_RS15535;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=Cpin_3123;product=TonB-dependent receptor;protein_id=WP_012790767.1;transl_table=11;translation=length.1139
NC_013132	GenBank	exon	1	3420	.	+	1	Parent=CPIN_RS15535.t01
NC_013132	GenBank	gene	3442	4908	.	+	1	ID=CPIN_RS15540;Name=CPIN_RS15540;old_locus_tag=Cpin_3124
NC_013132	GenBank	mRNA	3442	4908	.	+	1	ID=CPIN_RS15540.t01;Parent=CPIN_RS15540
NC_013132	GenBank	CDS	3442	4908	.	+	1	ID=CPIN_RS15540.p01;Parent=CPIN_RS15540.t01;Name=CPIN_RS15540;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_010852781.1;old_locus_tag=Cpin_3124;product=RagB/SusD family nutrient uptake outer membrane protein;protein_id=WP_012790768.1;transl_table=11;translation=length.488
NC_013132	GenBank	exon	3442	4908	.	+	1	Parent=CPIN_RS15540.t01
NC_013132	GenBank	gene	4982	7168	.	+	1	ID=CPIN_RS15545;Name=CPIN_RS15545;old_locus_tag=Cpin_3125
NC_013132	GenBank	mRNA	4982	7168	.	+	1	ID=CPIN_RS15545.t01;Parent=CPIN_RS15545
NC_013132	GenBank	CDS	4982	7168	.	+	1	ID=CPIN_RS15545.p01;Parent=CPIN_RS15545.t01;Name=CPIN_RS15545;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_013632159.1;old_locus_tag=Cpin_3125;product=alpha-N-acetylglucosaminidase;protein_id=WP_012790769.1;transl_table=11;translation=length.728
NC_013132	GenBank	exon	4982	7168	.	+	1	Parent=CPIN_RS15545.t01
NC_013132	GenBank	gene	7225	7593	.	-	1	ID=CPIN_RS15550;Name=CPIN_RS15550;old_locus_tag=Cpin_3126
NC_013132	GenBank	mRNA	7225	7593	.	-	1	ID=CPIN_RS15550.t01;Parent=CPIN_RS15550
NC_013132	GenBank	CDS	7225	7593	.	-	1	ID=CPIN_RS15550.p01;Parent=CPIN_RS15550.t01;Name=CPIN_RS15550;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_013071407.1;old_locus_tag=Cpin_3126;product=helix-turn-helix transcriptional regulator;protein_id=WP_012790770.1;transl_table=11;translation=length.122
NC_013132	GenBank	exon	7225	7593	.	-	1	Parent=CPIN_RS15550.t01
NC_013132	GenBank	gene	7658	8647	.	+	1	ID=CPIN_RS15555;Name=CPIN_RS15555;old_locus_tag=Cpin_3127
NC_013132	GenBank	mRNA	7658	8647	.	+	1	ID=CPIN_RS15555.t01;Parent=CPIN_RS15555
NC_013132	GenBank	CDS	7658	8647	.	+	1	ID=CPIN_RS15555.p01;Parent=CPIN_RS15555.t01;Name=CPIN_RS15555;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: protein motif:HMM:PF02230.14;old_locus_tag=Cpin_3127;product=hypothetical protein;protein_id=WP_083781109.1;transl_table=11;translation=length.329
NC_013132	GenBank	exon	7658	8647	.	+	1	Parent=CPIN_RS15555.t01
NC_013132	GenBank	gene	8653	12348	.	-	1	ID=CPIN_RS15560;Name=CPIN_RS15560;old_locus_tag=Cpin_3128
NC_013132	GenBank	mRNA	8653	12348	.	-	1	ID=CPIN_RS15560.t01;Parent=CPIN_RS15560
NC_013132	GenBank	CDS	8653	12348	.	-	1	ID=CPIN_RS15560.p01;Parent=CPIN_RS15560.t01;Name=CPIN_RS15560;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: protein motif:HMM:PF02156.13;old_locus_tag=Cpin_3128;product=glycosyltransferase;protein_id=WP_012790772.1;transl_table=11;translation=length.1231
NC_013132	GenBank	exon	8653	12348	.	-	1	Parent=CPIN_RS15560.t01
NC_013132	GenBank	gene	12392	13741	.	-	1	ID=CPIN_RS15565;Name=CPIN_RS15565;old_locus_tag=Cpin_3129
NC_013132	GenBank	mRNA	12392	13741	.	-	1	ID=CPIN_RS15565.t01;Parent=CPIN_RS15565
NC_013132	GenBank	CDS	12392	13741	.	-	1	ID=CPIN_RS15565.p01;Parent=CPIN_RS15565.t01;Name=CPIN_RS15565;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: protein motif:HMM:PF02836.15;old_locus_tag=Cpin_3129;product=hypothetical protein;protein_id=WP_148230575.1;transl_table=11;translation=length.449
NC_013132	GenBank	exon	12392	13741	.	-	1	Parent=CPIN_RS15565.t01