Rhizobium oryzihabitans strain M15 plasmid p2, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales; Rhizobiaceae; Rhizobium/Agrobacterium group; Rhizobium.
Plant-Promoting Endophytic Bacterium Rhizobium oryzihabitans sp. nov., Isolated from the Root of Rice
Submitted (06-FEB-2020) Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, zhongguancunnandajie, beijing, beijing 100081, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP048634.1.\nBacteria and source DNA available from Key Laboratory of Microbial\nResources Collection and Preservation.\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 :: JUN-2018\nAssembly Method :: HGAP4 v. 2018-06; CANU v. 1.6\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 150.0x\nSequencing Technology :: Illumina miseq+Pacbio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/06/2023 02:03:37\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) :: 5,749\nCDSs (total) :: 5,670\nGenes (coding) :: 5,255\nCDSs (with protein) :: 5,255\nGenes (RNA) :: 79\nrRNAs :: 6, 4, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 4, 6 (5S, 16S, 23S)\ntRNAs :: 59\nncRNAs :: 4\nPseudo Genes (total) :: 415\nCDSs (without protein) :: 415\nPseudo Genes (ambiguous residues) :: 0 of 415\nPseudo Genes (frameshifted) :: 352 of 415\nPseudo Genes (incomplete) :: 76 of 415\nPseudo Genes (internal stop) :: 8 of 415\nPseudo Genes (multiple problems) :: 21 of 415\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type material of Rhizobium oryzihabitans
COORDINATES: similar to AA sequence:RefSeq:WP_012648911.1
frameshifted; 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_015341778.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012760230.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011579009.1
COORDINATES: similar to AA sequence:RefSeq:WP_007801540.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_012755578.1
GO:0110001 - toxin-antitoxin complex [Evidence IEA]
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_015341782.1
COORDINATES: similar to AA sequence:RefSeq:WP_003501255.1
COORDINATES: similar to AA sequence:RefSeq:WP_011654541.1
GO:0004803 - transposase activity [Evidence IEA]
incomplete; too short partial abutting assembly gap; missing N-terminus; Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.