Sphingomonas naphthae strain KACC 18716 plasmid unnamed4, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Sphingomonas.
Genome sequence of Sphingomonas naphthae
Submitted (02-FEB-2023) Agricultural Microbiology Division, National Institute of Agricultural Sciences, Rural Development Administration, 166, Nongsaengmyeong-ro, Iseo-myeon, Wanju-gun, Jeollabuk-do 55365, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP117415.1.\nBacteria and source DNA available from Korean Agricultural Culture\nCollection (KACC).\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 :: HiFiasm v. 0.16.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 542.0x\nSequencing Technology :: PacBio Sequel; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/13/2023 19:21:37\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) :: 4,196\nCDSs (total) :: 4,140\nGenes (coding) :: 4,102\nCDSs (with protein) :: 4,102\nGenes (RNA) :: 56\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 47\nncRNAs :: 3\nPseudo Genes (total) :: 38\nCDSs (without protein) :: 38\nPseudo Genes (ambiguous residues) :: 0 of 38\nPseudo Genes (frameshifted) :: 14 of 38\nPseudo Genes (incomplete) :: 25 of 38\nPseudo Genes (internal stop) :: 4 of 38\nPseudo Genes (multiple problems) :: 5 of 38\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: similar to AA sequence:RefSeq:WP_004213387.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_007685988.1
type II toxin-antitoxin system YafQ family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_017503755.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
type II toxin-antitoxin system RelB/DinJ family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_013041576.1
COORDINATES: similar to AA sequence:RefSeq:WP_012554518.1
COORDINATES: similar to AA sequence:RefSeq:WP_013041578.1
COORDINATES: similar to AA sequence:RefSeq:WP_008832586.1
COORDINATES: similar to AA sequence:RefSeq:WP_010339215.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_010339214.1
COORDINATES: similar to AA sequence:RefSeq:WP_015449237.1
COORDINATES: similar to AA sequence:RefSeq:WP_015449238.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213370.1
COORDINATES: similar to AA sequence:RefSeq:WP_010339210.1
Ti-type conjugative transfer relaxase TraA
COORDINATES: similar to AA sequence:RefSeq:WP_010339209.1
COORDINATES: similar to AA sequence:RefSeq:WP_010339208.1
COORDINATES: similar to AA sequence:RefSeq:WP_017501674.1
COORDINATES: similar to AA sequence:RefSeq:WP_018250482.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004212865.1
COORDINATES: similar to AA sequence:RefSeq:WP_004212864.1
Mu transposase C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF024793.2
COORDINATES: similar to AA sequence:RefSeq:WP_010339226.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.