Deinococcus radiophilus strain ATCC 27603 plasmid pRadio5, complete sequence.
Bacteria; Deinococcus-Thermus; Deinococci; Deinococcales; Deinococcaceae; Deinococcus.
Single Nanopore flow cell sequencing of Deinococcus radiophilus hints at prophage related plasmids: An amateur research perspective
Submitted (04-NOV-2021) Research, Binomica Labs, 4301 22nd St 3FL Studio 342, Long Island City, NY 11101, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP086385.1.\nBacteria and source DNA available from ATCC 27603 - Carolina\nBiological Supply.\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 Date :: 11-SEP-2020\nAssembly Method :: Trycycler v. 0.3.2\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 800.0x\nSequencing Technology :: Oxford Nanopore MinION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/06/2022 04:26:03\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 2,840\nCDSs (total) :: 2,779\nGenes (coding) :: 2,720\nCDSs (with protein) :: 2,720\nGenes (RNA) :: 61\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 49\nncRNAs :: 3\nPseudo Genes (total) :: 59\nCDSs (without protein) :: 59\nPseudo Genes (ambiguous residues) :: 0 of 59\nPseudo Genes (frameshifted) :: 28 of 59\nPseudo Genes (incomplete) :: 30 of 59\nPseudo Genes (internal stop) :: 12 of 59\nPseudo Genes (multiple problems) :: 10 of 59\nCRISPR Arrays :: 2\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:NF028103.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
DNA-primase RepB domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012477500.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015231396.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015231395.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_014686946.1
COORDINATES: similar to AA sequence:RefSeq:WP_017871162.1
COORDINATES: similar to AA sequence:RefSeq:WP_018466035.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008628396.1
type II toxin-antitoxin system HigB family toxin
COORDINATES: protein motif:HMM:NF013540.2
COORDINATES: protein motif:HMM:NF013970.2
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:NF024352.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: protein motif:HMM:NF015210.2
COORDINATES: protein motif:HMM:NF024491.2