Thermus aquaticus Y51MC23 plasmid pTA78, complete sequence.
Bacteria; Deinococcota; Deinococci; Thermales; Thermaceae; Thermus.
Complete Genome Sequence of Thermus aquaticus Y51MC23
Submitted (20-APR-2015) Research and Development, Lucigen Corp., 2905 Parmenter Street, Middleton, WI 53562, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP010826.1.\nAnnotation provided by the submitter based on the NCBI Prokaryotic\nGenome Annotation Pipeline (released 2013). Information about the\nPipeline can be found here:\nhttp://www.ncbi.nlm.nih.gov/genome/annotation_prok/\nBacteria available from David Mead (dmead@Lucigen.com).\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 :: CLC Genomics Workbench de novo assembly v.\n 7.0\nAssembly Name :: Taq\nGenome Coverage :: 60X\nSequencing Technology :: Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/23/2022 02:24:24\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) :: 2,553\nCDSs (total) :: 2,490\nGenes (coding) :: 2,440\nCDSs (with protein) :: 2,440\nGenes (RNA) :: 63\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 52\nncRNAs :: 5\nPseudo Genes (total) :: 50\nCDSs (without protein) :: 50\nPseudo Genes (ambiguous residues) :: 0 of 50\nPseudo Genes (frameshifted) :: 22 of 50\nPseudo Genes (incomplete) :: 39 of 50\nPseudo Genes (internal stop) :: 8 of 50\nPseudo Genes (multiple problems) :: 16 of 50\nCRISPR Arrays :: 7\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
GO:0005524 - ATP binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF020926.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_003049275.1
COORDINATES: similar to AA sequence:RefSeq:WP_015065449.1
COORDINATES: similar to AA sequence:RefSeq:WP_003049270.1
COORDINATES: similar to AA sequence:RefSeq:WP_003049267.1
COORDINATES: similar to AA sequence:RefSeq:WP_011172890.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011228558.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000799668.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [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_003049330.1
COORDINATES: similar to AA sequence:RefSeq:WP_019551584.1
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_014511247.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_020464181.1
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_015065263.1
GO:0004386 - helicase activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019551601.1
COORDINATES: similar to AA sequence:RefSeq:WP_019551602.1
internal stop; 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_013013223.1
COORDINATES: similar to AA sequence:RefSeq:WP_011229093.1
COORDINATES: similar to AA sequence:RefSeq:WP_011174398.1
COORDINATES: similar to AA sequence:RefSeq:WP_011174401.1
GO:0016020 - membrane [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011174402.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma-70 family RNA polymerase sigma factor
COORDINATES: similar to AA sequence:RefSeq:WP_014515554.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018112356.1
COORDINATES: similar to AA sequence:RefSeq:WP_014515556.1
ABC transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF023294.2
COORDINATES: similar to AA sequence:RefSeq:WP_014630458.1
COORDINATES: similar to AA sequence:RefSeq:WP_014514629.1
COORDINATES: nucleotide motif:Rfam:14.4:RF00174
cobalamin riboswitch; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_011174406.1
COORDINATES: similar to AA sequence:RefSeq:WP_015065334.1
ribonucleotide-diphosphate reductase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_018461846.1
GO:0004748 - ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor [Evidence IEA]
ribonucleoside-diphosphate reductase subunit alpha
frameshifted; 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_076611405.1
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024993.2
ankyrin repeat domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011174358.1
COORDINATES: similar to AA sequence:RefSeq:WP_011174476.1
COORDINATES: similar to AA sequence:RefSeq:WP_008631365.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF013970.2
COORDINATES: similar to AA sequence:RefSeq:WP_011174408.1
COORDINATES: similar to AA sequence:RefSeq:WP_018461178.1
COORDINATES: similar to AA sequence:RefSeq:WP_014511052.1
COORDINATES: similar to AA sequence:RefSeq:WP_014511053.1
COORDINATES: protein motif:HMM:NF019843.2
COORDINATES: protein motif:HMM:NF016056.2
DCC1-like thiol-disulfide oxidoreductase family protein
COORDINATES: protein motif:HMM:NF012415.2
COORDINATES: similar to AA sequence:RefSeq:WP_016329731.1
COORDINATES: similar to AA sequence:RefSeq:WP_016329730.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003049312.1
COORDINATES: similar to AA sequence:RefSeq:WP_014511091.1
type II toxin-antitoxin system HicB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_014511092.1
type II toxin-antitoxin system HicA family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_014511121.1
COORDINATES: similar to AA sequence:RefSeq:WP_014511122.1
COORDINATES: similar to AA sequence:RefSeq:WP_014511123.1
COORDINATES: similar to AA sequence:RefSeq:WP_014511377.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: protein motif:HMM:NF019371.2
COORDINATES: similar to AA sequence:RefSeq:WP_015717569.1
COORDINATES: similar to AA sequence:RefSeq:WP_003049285.1
GO:0015074 - DNA integration [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015065495.1
COORDINATES: similar to AA sequence:RefSeq:WP_011174478.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_015739328.1
COORDINATES: protein motif:HMM:NF014442.2