Akkermansia muciniphila strain JCM 30893 plasmid pJ30893, complete sequence.
Bacteria; Verrucomicrobiota; Verrucomicrobiae; Verrucomicrobiales; Akkermansiaceae; Akkermansia.
Complete Genome Sequence of Akkermansia muciniphila JCM 30893, Isolated from Feces of a Healthy Japanese Male
Microbiol Resour Announc 9 (7), e01543-19 (2020)
DOI:10.1128/MRA.01543-19 Publication Status: Online-Only
Submitted (28-NOV-2019) Contact:Yusuke Ogata RIKEN, Center for Integrative Medical Sciences, Laboratory for Microbiome Sciences; 1-7-22, Suehirocho, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan
REFSEQ INFORMATION: The reference sequence is identical to\nAP021899.1.\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 :: Unicycler v. 0.4.6\nGenome Coverage :: 1560x\nSequencing Technology :: Illumina MiSeq; PacBio Sequel\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/19/2022 13:50:12\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) :: 2,430\nCDSs (total) :: 2,364\nGenes (coding) :: 2,359\nCDSs (with protein) :: 2,359\nGenes (RNA) :: 66\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 54\nncRNAs :: 3\nPseudo Genes (total) :: 5\nCDSs (without protein) :: 5\nPseudo Genes (ambiguous residues) :: 0 of 5\nPseudo Genes (frameshifted) :: 0 of 5\nPseudo Genes (incomplete) :: 5 of 5\nPseudo Genes (internal stop) :: 0 of 5\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
GO:0006259 - DNA metabolic process [Evidence IEA]
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF024671.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF025597.2
COORDINATES: protein motif:HMM:NF013670.2
COORDINATES: protein motif:HMM:NF021627.2
COORDINATES: protein motif:HMM:NF017850.2
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: similar to AA sequence:RefSeq:WP_017814433.1
COORDINATES: protein motif:HMM:NF014166.2
GO:0004520 - endodeoxyribonuclease activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]; GO:0006281 - DNA repair [Evidence IEA]
crossover junction endodeoxyribonuclease RuvC
COORDINATES: protein motif:HMM:NF021128.2