Arsenophonus apicola strain ArsBeeUS plasmid pArsBee3, complete sequence.
Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacterales; Morganellaceae; Arsenophonus.
Culture and genomic analysis of Arsenophonus apicola sp. nov. isolated from the honeybee Apis mellifera
Submitted (27-SEP-2021) Evolution, Ecology and Behaviour, University of Liverpool, Crown Street, Biosciences building, Liverpool L69 7ZB, United Kingdom
REFSEQ INFORMATION: The reference sequence is identical to\nCP084225.1.\nBacteria and source DNA available from Pol Nadal Jimenez, Institute\nof Infection, Veterinary and Ecological Sciences, University of\nLiverpool, Ic2 Liverpool Science Park, 146 Brownlow Hill,\nLiverpool, L3 5RF, UK.\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 :: Flye v. 2.8; Pilon v. 1.23\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 49.6x\nSequencing Technology :: Oxford Nanopore MinION; Illumina MiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 09/04/2022 11:51:30\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.2\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 3,553\nCDSs (total) :: 3,453\nGenes (coding) :: 3,222\nCDSs (with protein) :: 3,222\nGenes (RNA) :: 100\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 70\nncRNAs :: 8\nPseudo Genes (total) :: 231\nCDSs (without protein) :: 231\nPseudo Genes (ambiguous residues) :: 0 of 231\nPseudo Genes (frameshifted) :: 136 of 231\nPseudo Genes (incomplete) :: 66 of 231\nPseudo Genes (internal stop) :: 64 of 231\nPseudo Genes (multiple problems) :: 33 of 231\nCRISPR Arrays :: 1\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_012105520.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF019151.2
COORDINATES: protein motif:HMM:NF015210.2
COORDINATES: similar to AA sequence:RefSeq:WP_006657616.1
COORDINATES: protein motif:HMM:NF012920.2
COORDINATES: similar to AA sequence:RefSeq:WP_004247716.1
COORDINATES: protein motif:HMM:NF013540.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF017113.2
COORDINATES: similar to AA sequence:RefSeq:WP_012987732.1
COORDINATES: protein motif:HMM:NF025107.2
COORDINATES: similar to AA sequence:RefSeq:WP_010848819.1
COORDINATES: protein motif:HMM:NF018403.2
COORDINATES: protein motif:HMM:NF016343.2
COORDINATES: protein motif:HMM:NF007281.0
COORDINATES: similar to AA sequence:RefSeq:WP_011410602.1
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_001749500.1
COORDINATES: similar to AA sequence:RefSeq:WP_015994256.1
GO:0060567 - negative regulation of termination of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004247854.1
COORDINATES: similar to AA sequence:RefSeq:WP_015874049.1
COORDINATES: similar to AA sequence:RefSeq:WP_017628366.1
COORDINATES: protein motif:HMM:NF015218.2
COORDINATES: similar to AA sequence:RefSeq:WP_015835241.1
COORDINATES: similar to AA sequence:RefSeq:WP_004242355.1
COORDINATES: similar to AA sequence:RefSeq:WP_004245976.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_004245975.1
COORDINATES: similar to AA sequence:RefSeq:WP_002211721.1
COORDINATES: similar to AA sequence:RefSeq:WP_004190654.1
COORDINATES: similar to AA sequence:RefSeq:WP_002211719.1
COORDINATES: similar to AA sequence:RefSeq:WP_006660974.1
COORDINATES: similar to AA sequence:RefSeq:WP_004247504.1
COORDINATES: similar to AA sequence:RefSeq:WP_004247505.1
COORDINATES: similar to AA sequence:RefSeq:WP_004245960.1
COORDINATES: similar to AA sequence:RefSeq:WP_004245959.1
COORDINATES: similar to AA sequence:RefSeq:WP_001555939.1
COORDINATES: protein motif:HMM:NF024949.2
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF022022.2
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_006659237.1
GO:0044423 - virion component [Evidence IEA]
GO:0005198 - structural molecule activity [Evidence IEA]
GO:0016032 - viral process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012368856.1
COORDINATES: similar to AA sequence:RefSeq:WP_021141233.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004247516.1
COORDINATES: similar to AA sequence:RefSeq:WP_000817271.1
RNA-guided endonuclease TnpB family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014657918.1
COORDINATES: similar to AA sequence:RefSeq:WP_006657765.1
COORDINATES: similar to AA sequence:RefSeq:WP_013184185.1
COORDINATES: similar to AA sequence:RefSeq:WP_013184184.1
COORDINATES: protein motif:HMM:TIGR01352.1
GO:0015291 - secondary active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011410952.1
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF020572.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0008907 - integrase activity [Evidence IEA]
GO:0015074 - DNA integration [Evidence IEA]
phage integrase Arm DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014640122.1
COORDINATES: similar to AA sequence:RefSeq:WP_015971227.1
COORDINATES: similar to AA sequence:RefSeq:WP_001066833.1
COORDINATES: similar to AA sequence:RefSeq:WP_020753290.1