##gff-version 3
##sequence-region NC_007912 1 24067
# conversion-by bp_genbank2gff3.pl
# organism Saccharophagus degradans 2-40
# Note Saccharophagus degradans 2-40, complete sequence.
# date 17-FEB-2020
NC_007912	GenBank	region	1	24067	.	+	1	ID=NC_007912;Dbxref=BioProject:PRJNA224116,taxon:203122;Name=NC_007912;Note=Saccharophagus degradans 2-40%2C complete sequence.,REFSEQ INFORMATION: The reference sequence was derived from CP000282. URL -- http://www.jgi.doe.gov JGI Project ID: 2662192 Source DNA and bacteria available from Ronald Weiner (rw19@umail.umd.edu) Contacts: Ronald Wiener (rw19@umail.umd.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-LANL 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 :: 02/17/2020 16:21:19 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) :: 4,133 CDSs (total) :: 4,082 Genes (coding) :: 4,035 CDSs (with protein) :: 4,035 Genes (RNA) :: 51 rRNAs :: 2,2,2 (5S,16S,23S) complete rRNAs :: 2,2,2 (5S,16S,23S) tRNAs :: 41 ncRNAs :: 4 Pseudo Genes (total) :: 47 CDSs (without protein) :: 47 Pseudo Genes (ambiguous residues) :: 0 of 47 Pseudo Genes (frameshifted) :: 7 of 47 Pseudo Genes (incomplete) :: 35 of 47 Pseudo Genes (internal stop) :: 7 of 47 Pseudo Genes (multiple problems) :: 2 of 47 ##Genome-Annotation-Data-END## COMPLETENESS: full length. ;comment1=REFSEQ INFORMATION: The reference sequence was derived from CP000282. URL -- http://www.jgi.doe.gov JGI Project ID: 2662192 Source DNA and bacteria available from Ronald Weiner (rw19@umail.umd.edu) Contacts: Ronald Wiener (rw19@umail.umd.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-LANL 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 :: 02/17/2020 16:21:19 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) :: 4%2C133 CDSs (total) :: 4%2C082 Genes (coding) :: 4%2C035 CDSs (with protein) :: 4%2C035 Genes (RNA) :: 51 rRNAs :: 2%2C 2%2C 2 (5S%2C 16S%2C 23S) complete rRNAs :: 2%2C 2%2C 2 (5S%2C 16S%2C 23S) tRNAs :: 41 ncRNAs :: 4 Pseudo Genes (total) :: 47 CDSs (without protein) :: 47 Pseudo Genes (ambiguous residues) :: 0 of 47 Pseudo Genes (frameshifted) :: 7 of 47 Pseudo Genes (incomplete) :: 35 of 47 Pseudo Genes (internal stop) :: 7 of 47 Pseudo Genes (multiple problems) :: 2 of 47 ##Genome-Annotation-Data-END## COMPLETENESS: full length. ;date=17-FEB-2020;mol_type=genomic DNA;organism=Saccharophagus degradans 2-40;strain=2-40;type_material=type strain of Saccharophagus degradans
NC_007912	GenBank	gene	1	1659	.	+	1	ID=SDE_RS17125;Name=SDE_RS17125;old_locus_tag=Sde_3272
NC_007912	GenBank	mRNA	1	1659	.	+	1	ID=SDE_RS17125.t01;Parent=SDE_RS17125
NC_007912	GenBank	CDS	1	1659	.	+	1	ID=SDE_RS17125.p01;Parent=SDE_RS17125.t01;Name=SDE_RS17125;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_013785756.1;old_locus_tag=Sde_3272;product=hypothetical protein;protein_id=WP_011469743.1;transl_table=11;translation=length.552
NC_007912	GenBank	exon	1	1659	.	+	1	Parent=SDE_RS17125.t01
NC_007912	GenBank	gene	2028	3464	.	+	1	ID=SDE_RS17130;Name=SDE_RS17130;old_locus_tag=Sde_3273
NC_007912	GenBank	mRNA	2028	3464	.	+	1	ID=SDE_RS17130.t01;Parent=SDE_RS17130
NC_007912	GenBank	CDS	2028	3464	.	+	1	ID=SDE_RS17130.p01;Parent=SDE_RS17130.t01;Name=SDE_RS17130;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_007621802.1;old_locus_tag=Sde_3273;product=2OG-Fe(II) oxygenase;protein_id=WP_011469744.1;transl_table=11;translation=length.478
NC_007912	GenBank	exon	2028	3464	.	+	1	Parent=SDE_RS17130.t01
NC_007912	GenBank	gene	3433	3642	.	+	1	ID=SDE_RS17135;Name=SDE_RS17135
NC_007912	GenBank	mRNA	3433	3642	.	+	1	ID=SDE_RS17135.t01;Parent=SDE_RS17135
NC_007912	GenBank	CDS	3433	3642	.	+	1	ID=SDE_RS17135.p01;Parent=SDE_RS17135.t01;Name=SDE_RS17135;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_008181501.1;product=hypothetical protein;protein_id=WP_041325944.1;transl_table=11;translation=length.69
NC_007912	GenBank	exon	3433	3642	.	+	1	Parent=SDE_RS17135.t01
NC_007912	GenBank	gene	3769	5346	.	-	1	ID=SDE_RS17140;Name=SDE_RS17140;old_locus_tag=Sde_3274
NC_007912	GenBank	mRNA	3769	5346	.	-	1	ID=SDE_RS17140.t01;Parent=SDE_RS17140
NC_007912	GenBank	CDS	3769	5346	.	-	1	ID=SDE_RS17140.p01;Parent=SDE_RS17140.t01;eC_number=4.2.2.3;Name=SDE_RS17140;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: protein motif:HMM:NF025943.1;old_locus_tag=Sde_3274;product=poly(beta-D-mannuronate) lyase;protein_id=WP_011469745.1;transl_table=11;translation=length.525
NC_007912	GenBank	exon	3769	5346	.	-	1	Parent=SDE_RS17140.t01
NC_007912	GenBank	gene	5465	8143	.	-	1	ID=SDE_RS17145;Name=SDE_RS17145;old_locus_tag=Sde_3275
NC_007912	GenBank	mRNA	5465	8143	.	-	1	ID=SDE_RS17145.t01;Parent=SDE_RS17145
NC_007912	GenBank	CDS	5465	8143	.	-	1	ID=SDE_RS17145.p01;Parent=SDE_RS17145.t01;eC_number=4.2.2.3;Name=SDE_RS17145;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_017445255.1;old_locus_tag=Sde_3275;product=polysaccharide lyase;protein_id=WP_011469746.1;transl_table=11;translation=length.892
NC_007912	GenBank	exon	5465	8143	.	-	1	Parent=SDE_RS17145.t01
NC_007912	GenBank	gene	8249	9100	.	-	1	ID=SDE_RS17150;Name=SDE_RS17150;old_locus_tag=Sde_3276
NC_007912	GenBank	mRNA	8249	9100	.	-	1	ID=SDE_RS17150.t01;Parent=SDE_RS17150
NC_007912	GenBank	CDS	8249	9100	.	-	1	ID=SDE_RS17150.p01;Parent=SDE_RS17150.t01;Name=SDE_RS17150;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_011468838.1;old_locus_tag=Sde_3276;product=transporter substrate-binding domain-containing protein;protein_id=WP_011469747.1;transl_table=11;translation=length.283
NC_007912	GenBank	exon	8249	9100	.	-	1	Parent=SDE_RS17150.t01
NC_007912	GenBank	gene	9534	10283	.	-	1	ID=SDE_RS17155;Name=SDE_RS17155;old_locus_tag=Sde_3277
NC_007912	GenBank	mRNA	9534	10283	.	-	1	ID=SDE_RS17155.t01;Parent=SDE_RS17155
NC_007912	GenBank	CDS	9534	10283	.	-	1	ID=SDE_RS17155.p01;Parent=SDE_RS17155.t01;eC_number=5.3.1.1;Name=SDE_RS17155;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_019560376.1;old_locus_tag=Sde_3277;product=triose-phosphate isomerase;protein_id=WP_041325945.1;transl_table=11;translation=length.249
NC_007912	GenBank	exon	9534	10283	.	-	1	Parent=SDE_RS17155.t01
NC_007912	GenBank	gene	10308	12056	.	-	1	ID=SDE_RS17160;Name=SDE_RS17160
NC_007912	GenBank	mRNA	10308	12056	.	-	1	ID=SDE_RS17160.t01;Parent=SDE_RS17160
NC_007912	GenBank	CDS	10308	12056	.	-	1	ID=SDE_RS17160.p01;Parent=SDE_RS17160.t01;Name=SDE_RS17160;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: protein motif:HMM:NF018571.1;product=fructose-bisphosphatase class III;protein_id=WP_011469749.1;transl_table=11;translation=length.582
NC_007912	GenBank	exon	10308	12056	.	-	1	Parent=SDE_RS17160.t01
NC_007912	GenBank	gene	12125	13222	.	-	1	ID=SDE_RS17165;Name=fbaA;locus_tag=SDE_RS17165;old_locus_tag=Sde_3279
NC_007912	GenBank	mRNA	12125	13222	.	-	1	ID=SDE_RS17165.t01;Parent=SDE_RS17165
NC_007912	GenBank	CDS	12125	13222	.	-	1	ID=SDE_RS17165.p01;Parent=SDE_RS17165.t01;eC_number=4.1.2.13;Name=fbaA;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_015812155.1;locus_tag=SDE_RS17165;old_locus_tag=Sde_3279;product=class II fructose-bisphosphate aldolase;protein_id=WP_011469750.1;transl_table=11;translation=length.365
NC_007912	GenBank	exon	12125	13222	.	-	1	Parent=SDE_RS17165.t01
NC_007912	GenBank	gene	13436	14380	.	-	1	ID=SDE_RS17170;Name=SDE_RS17170;old_locus_tag=Sde_3280
NC_007912	GenBank	mRNA	13436	14380	.	-	1	ID=SDE_RS17170.t01;Parent=SDE_RS17170
NC_007912	GenBank	CDS	13436	14380	.	-	1	ID=SDE_RS17170.p01;Parent=SDE_RS17170.t01;Name=SDE_RS17170;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_016942774.1;old_locus_tag=Sde_3280;product=sugar kinase;protein_id=WP_143710915.1;transl_table=11;translation=length.314
NC_007912	GenBank	exon	13436	14380	.	-	1	Parent=SDE_RS17170.t01
NC_007912	GenBank	gene	14505	15257	.	-	1	ID=SDE_RS17175;Name=SDE_RS17175;old_locus_tag=Sde_3281
NC_007912	GenBank	mRNA	14505	15257	.	-	1	ID=SDE_RS17175.t01;Parent=SDE_RS17175
NC_007912	GenBank	CDS	14505	15257	.	-	1	ID=SDE_RS17175.p01;Parent=SDE_RS17175.t01;eC_number=1.1.1.47;Name=SDE_RS17175;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_020210476.1;old_locus_tag=Sde_3281;product=glucose 1-dehydrogenase;protein_id=WP_011469752.1;transl_table=11;translation=length.250
NC_007912	GenBank	exon	14505	15257	.	-	1	Parent=SDE_RS17175.t01
NC_007912	GenBank	gene	15321	16595	.	-	1	ID=SDE_RS17180;Name=SDE_RS17180;old_locus_tag=Sde_3282
NC_007912	GenBank	mRNA	15321	16595	.	-	1	ID=SDE_RS17180.t01;Parent=SDE_RS17180
NC_007912	GenBank	CDS	15321	16595	.	-	1	ID=SDE_RS17180.p01;Parent=SDE_RS17180.t01;Name=SDE_RS17180;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_013270303.1;old_locus_tag=Sde_3282;product=MFS transporter;protein_id=WP_011469753.1;transl_table=11;translation=length.424
NC_007912	GenBank	exon	15321	16595	.	-	1	Parent=SDE_RS17180.t01
NC_007912	GenBank	gene	16607	16951	.	-	1	ID=SDE_RS17185;Name=SDE_RS17185;old_locus_tag=Sde_3283
NC_007912	GenBank	mRNA	16607	16951	.	-	1	ID=SDE_RS17185.t01;Parent=SDE_RS17185
NC_007912	GenBank	CDS	16607	16951	.	-	1	ID=SDE_RS17185.p01;Parent=SDE_RS17185.t01;Name=SDE_RS17185;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_010131295.1;old_locus_tag=Sde_3283;product=cupin domain-containing protein;protein_id=WP_011469754.1;transl_table=11;translation=length.114
NC_007912	GenBank	exon	16607	16951	.	-	1	Parent=SDE_RS17185.t01
NC_007912	GenBank	gene	17076	19286	.	-	1	ID=SDE_RS17190;Name=SDE_RS17190;old_locus_tag=Sde_3284
NC_007912	GenBank	mRNA	17076	19286	.	-	1	ID=SDE_RS17190.t01;Parent=SDE_RS17190
NC_007912	GenBank	CDS	17076	19286	.	-	1	ID=SDE_RS17190.p01;Parent=SDE_RS17190.t01;Name=SDE_RS17190;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: protein motif:HMM:NF017263.1%2CHMM:NF019552.1;old_locus_tag=Sde_3284;product=alginate lyase family protein;protein_id=WP_011469755.1;transl_table=11;translation=length.736
NC_007912	GenBank	exon	17076	19286	.	-	1	Parent=SDE_RS17190.t01
NC_007912	GenBank	gene	19303	21585	.	-	1	ID=SDE_RS17195;Name=SDE_RS17195;old_locus_tag=Sde_3285
NC_007912	GenBank	mRNA	19303	21585	.	-	1	ID=SDE_RS17195.t01;Parent=SDE_RS17195
NC_007912	GenBank	CDS	19303	21585	.	-	1	ID=SDE_RS17195.p01;Parent=SDE_RS17195.t01;eC_number=4.2.2.3;Name=SDE_RS17195;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_016706361.1;old_locus_tag=Sde_3285;product=alginate lyase;protein_id=WP_011469756.1;transl_table=11;translation=length.760
NC_007912	GenBank	exon	19303	21585	.	-	1	Parent=SDE_RS17195.t01
NC_007912	GenBank	gene	22111	23142	.	+	1	ID=SDE_RS17205;Name=SDE_RS17205;old_locus_tag=Sde_3286
NC_007912	GenBank	mRNA	22111	23142	.	+	1	ID=SDE_RS17205.t01;Parent=SDE_RS17205
NC_007912	GenBank	CDS	22111	23142	.	+	1	ID=SDE_RS17205.p01;Parent=SDE_RS17205.t01;Name=SDE_RS17205;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: protein motif:HMM:NF020367.1;old_locus_tag=Sde_3286;product=polysaccharide lyase family 7 protein;protein_id=WP_011469757.1;transl_table=11;translation=length.343
NC_007912	GenBank	exon	22111	23142	.	+	1	Parent=SDE_RS17205.t01
NC_007912	GenBank	gene	23297	24067	.	+	1	ID=SDE_RS17210;Name=SDE_RS17210;old_locus_tag=Sde_3287
NC_007912	GenBank	mRNA	23297	24067	.	+	1	ID=SDE_RS17210.t01;Parent=SDE_RS17210
NC_007912	GenBank	CDS	23297	24067	.	+	1	ID=SDE_RS17210.p01;Parent=SDE_RS17210.t01;Name=SDE_RS17210;Note=Derived by automated computational analysis using gene prediction method: Protein Homology.;codon_start=1;inference=COORDINATES: similar to AA sequence:RefSeq:WP_013782715.1;old_locus_tag=Sde_3287;product=FadR family transcriptional regulator;protein_id=WP_011469758.1;transl_table=11;translation=length.256
NC_007912	GenBank	exon	23297	24067	.	+	1	Parent=SDE_RS17210.t01