Rothia amarae strain KJZ-9 plasmid p1, complete sequence.
Bacteria; Actinomycetota; Actinomycetes; Micrococcales; Micrococcaceae; Rothia.
Submitted (29-SEP-2020) School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, 800 Dongchuan RD., Shanghai 200240, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP062957.1.\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. 0.4.8\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 409.0x\nSequencing Technology :: Oxford Nanopore; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/22/2023 16:07:22\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) :: 2,309\nCDSs (total) :: 2,246\nGenes (coding) :: 2,218\nCDSs (with protein) :: 2,218\nGenes (RNA) :: 63\nrRNAs :: 4, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 3, 3 (5S, 16S, 23S)\ntRNAs :: 50\nncRNAs :: 3\nPseudo Genes (total) :: 28\nCDSs (without protein) :: 28\nPseudo Genes (ambiguous residues) :: 0 of 28\nPseudo Genes (frameshifted) :: 13 of 28\nPseudo Genes (incomplete) :: 13 of 28\nPseudo Genes (internal stop) :: 11 of 28\nPseudo Genes (multiple problems) :: 9 of 28\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_011069210.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_006213359.1
heavy-metal-associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017829692.1
COORDINATES: similar to AA sequence:RefSeq:WP_010534523.1
COORDINATES: similar to AA sequence:RefSeq:WP_006213356.1
COORDINATES: similar to AA sequence:RefSeq:WP_006591301.1
metal-sensitive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006214163.1
COORDINATES: similar to AA sequence:RefSeq:WP_007536463.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006214165.1
COORDINATES: similar to AA sequence:RefSeq:WP_008376383.1
COORDINATES: similar to AA sequence:RefSeq:WP_006214167.1
GO:0042625 - ATPase-coupled ion transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015771204.1
COORDINATES: similar to AA sequence:RefSeq:WP_007727110.1
GO:0051920 - peroxiredoxin activity [Evidence IEA]
carboxymuconolactone decarboxylase family protein
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: similar to AA sequence:RefSeq:WP_019309578.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_006214174.1
cation diffusion facilitator family transporter
COORDINATES: similar to AA sequence:RefSeq:WP_015780245.1
COORDINATES: similar to AA sequence:RefSeq:WP_006214176.1
GO:0015036 - disulfide oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005326095.1
COORDINATES: similar to AA sequence:RefSeq:WP_006822069.1
COORDINATES: protein motif:HMM:NF037202.2
type ISP restriction/modification enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_086558196.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF014442.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: protein motif:HMM:NF024784.2
COORDINATES: protein motif:HMM:NF041492.1
COORDINATES: protein motif:HMM:NF027584.2
COORDINATES: protein motif:HMM:NF014581.2
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006214749.1
COORDINATES: protein motif:HMM:NF013618.2
transglycosylase SLT domain-containing protein
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF018691.2
COORDINATES: protein motif:HMM:NF013088.2
COORDINATES: similar to AA sequence:RefSeq:WP_006332688.1
COORDINATES: protein motif:HMM:NF024752.2
COORDINATES: similar to AA sequence:RefSeq:WP_014603865.1
COORDINATES: similar to AA sequence:RefSeq:WP_013476019.1
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.