Vibrio panuliri strain JCM 19500 plasmid pVPan1, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Vibrionales; Vibrionaceae; Vibrio.
Vibrio taketomensis sp. nov. by genome taxonomy
DOI:10.1016/j.syapm.2019.126048 Publication Status: Online-Only
Submitted (24-APR-2019) Contact:Tomoo Sawabe Hokkaido University, Faculty of Fisheries Sciences; 3-1-1 Minato-cho, Hakodate, Hokkaido 041-8611, Japan
REFSEQ INFORMATION: The reference sequence is identical to\nAP019656.1.\nThe annotation was added by the NCBI Prokaryotic Genome Annotation\nPipeline (PGAP). Information about PGAP can be found here:\nhttps://www.ncbi.nlm.nih.gov/genome/annotation_prok/\n\n##Genome-Assembly-Data-START##\nAssembly Method :: Unicycler v. 0.4.7\nGenome Coverage :: 265x\nSequencing Technology :: Illumina MiSeq; ONT MinION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/27/2022 03:19:10\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 4,440\nCDSs (total) :: 4,291\nGenes (coding) :: 4,252\nCDSs (with protein) :: 4,252\nGenes (RNA) :: 149\nrRNAs :: 12, 11, 11 (5S, 16S, 23S)\ncomplete rRNAs :: 12, 11, 11 (5S, 16S, 23S)\ntRNAs :: 111\nncRNAs :: 4\nPseudo Genes (total) :: 39\nCDSs (without protein) :: 39\nPseudo Genes (ambiguous residues) :: 0 of 39\nPseudo Genes (frameshifted) :: 16 of 39\nPseudo Genes (incomplete) :: 30 of 39\nPseudo Genes (internal stop) :: 12 of 39\nPseudo Genes (multiple problems) :: 14 of 39\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF015841.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024784.2
COORDINATES: similar to AA sequence:RefSeq:WP_005412391.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF025438.2
COORDINATES: protein motif:HMM:NF018148.2
COORDINATES: protein motif:HMM:NF012354.2
COORDINATES: protein motif:HMM:NF024895.2
COORDINATES: similar to AA sequence:RefSeq:WP_004411279.1
COORDINATES: similar to AA sequence:RefSeq:WP_006073889.1
COORDINATES: similar to AA sequence:RefSeq:WP_017449445.1
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF013133.2
COORDINATES: protein motif:HMM:NF017663.2
GO:0000287 - magnesium ion binding [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]; GO:0006281 - DNA repair [Evidence IEA]
RusA family crossover junction endodeoxyribonuclease
COORDINATES: protein motif:HMM:NF025456.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF015736.2
DnaB-like helicase C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005490218.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_001044551.1
COORDINATES: similar to AA sequence:RefSeq:WP_020095712.1
COORDINATES: protein motif:HMM:NF013843.2
COORDINATES: protein motif:HMM:NF023657.2
COORDINATES: protein motif:HMM:NF028521.2