Methylobacterium indicum strain VL1 plasmid pVL1_6, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales; Methylobacteriaceae; Methylobacterium.
Complete genome sequence of a novel pathogenic Methylobacterium strain isolated from rice in Vietnam
Submitted (06-NOV-2020) Contact:Shin Okazaki Tokyo University of Agriculture and Technology, Graduate School of Agriculture; Saiwaicho 3-5-8, Fuchu, Tokyo 183-8509, Japan URL :http://web.tuat.ac.jp/~okazaki/enindex.html
REFSEQ INFORMATION: The reference sequence is identical to\nAP024151.1.\nAnnotated at DFAST https://dfast.nig.ac.jp/\n\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 :: HGAP v. 3\nGenome Coverage :: 120x\nSequencing Technology :: PacBio RSII; HiSeq 2500\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/28/2023 10:57:43\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 6,633\nCDSs (total) :: 6,493\nGenes (coding) :: 6,407\nCDSs (with protein) :: 6,407\nGenes (RNA) :: 140\nrRNAs :: 12, 12, 12 (5S, 16S, 23S)\ncomplete rRNAs :: 12, 12, 12 (5S, 16S, 23S)\ntRNAs :: 100\nncRNAs :: 4\nPseudo Genes (total) :: 86\nCDSs (without protein) :: 86\nPseudo Genes (ambiguous residues) :: 0 of 86\nPseudo Genes (frameshifted) :: 33 of 86\nPseudo Genes (incomplete) :: 68 of 86\nPseudo Genes (internal stop) :: 17 of 86\nPseudo Genes (multiple problems) :: 26 of 86\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:NF018497.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
phage tail length tape measure family protein
COORDINATES: protein motif:HMM:NF015807.2
COORDINATES: protein motif:HMM:NF024755.2
COORDINATES: protein motif:HMM:NF024872.2
COORDINATES: similar to AA sequence:RefSeq:WP_002965506.1
COORDINATES: protein motif:HMM:TIGR01764.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015933610.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_018264137.1
COORDINATES: similar to AA sequence:RefSeq:WP_007568502.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012333153.1
COORDINATES: similar to AA sequence:RefSeq:WP_006417258.1
COORDINATES: similar to AA sequence:RefSeq:WP_012322078.1
COORDINATES: protein motif:HMM:NF039341.1
COORDINATES: similar to AA sequence:RefSeq:WP_003600322.1
COORDINATES: similar to AA sequence:RefSeq:WP_012562526.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: protein motif:HMM:NF024949.2
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_012753511.1
COORDINATES: similar to AA sequence:RefSeq:WP_020095960.1
COORDINATES: similar to AA sequence:RefSeq:WP_007568534.1
COORDINATES: similar to AA sequence:RefSeq:WP_012606451.1
COORDINATES: similar to AA sequence:RefSeq:WP_002791849.1
COORDINATES: similar to AA sequence:RefSeq:WP_008969973.1