Mycoplasmoides pneumoniae strain NCTC10119 plasmid 2.
type: Entry
definition: Mycoplasmoides pneumoniae strain NCTC10119 plasmid 2.
sequence version: NZ_LR214946.1
sequence date: 2022-11-21
sequence: sequence
division: CON
label: NZ_LR214946.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMEA4384307
keyword: RefSeq
source: Mycoplasmoides pneumoniae (Mycoplasma pneumoniae)
organism: Mycoplasmoides pneumoniae
taxonomy: Bacteria; Tenericutes; Mycoplasmoidales; Metamycoplasmataceae; Mycoplasmoides.
reference: 1
comment: REFSEQ INFORMATION: The reference sequence is identical to\nLR214946.1.\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-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 11/21/2022 03:15:52\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 782\nCDSs (total) :: 740\nGenes (coding) :: 689\nCDSs (with protein) :: 689\nGenes (RNA) :: 42\nrRNAs :: 1, 1, 1 (5S, 16S, 23S)\ncomplete rRNAs :: 1, 1, 1 (5S, 16S, 23S)\ntRNAs :: 36\nncRNAs :: 3\nPseudo Genes (total) :: 51\nCDSs (without protein) :: 51\nPseudo Genes (ambiguous residues) :: 0 of 51\nPseudo Genes (frameshifted) :: 29 of 51\nPseudo Genes (incomplete) :: 26 of 51\nPseudo Genes (internal stop) :: 11 of 51\nPseudo Genes (multiple problems) :: 13 of 51\n##Genome-Annotation-Data-END##

sequence
subclass of: SO_0000155
sequence length: 5892
topology: linear
so has quality: SO_0000987
location: 1..5892
location: region:1-5892:1
RO_0002162: 2104

NZ_LR214946
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMEA4384307
type: BioSample
SIO_000068: biosample

1
title: Direct Submission
journal: Submitted (24-JAN-2019) WTSI, Pathogen Informatics, Wellcome Trust Sanger Institute, CB10 1SA, United Kingdom

position:1:1
position: 1
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5892:1
position: 5892
reference: sequence
type: ForwardStrandPosition
type: ExactPosition
type: FuzzyPosition

feature:1-5892:1:source
so part of: sequence
organism: Mycoplasmoides pneumoniae
mol type: genomic DNA
strain: NCTC10119
serovar: not available: to be reported later
isolation source: monkey kidney tissue-culture fluids of the FH strain (Eaton Agent Virus)
host: Homo sapiens
culture collection: NCTC:10119
type material: type strain of Mycoplasma pneumoniae
plasmid: 2
collection date: 1900/1967

2104
type: Taxonomy
SIO_000068: taxonomy

EXC43_RS03910
type: Gene
subclass of: SO_0000704
RO_0002162: 2104
locus tag: EXC43_RS03910
old locus tag: NCTC10119_00799
pseudo: true
so part of: sequence
location: complement(<1..236)
location: region:1-236:-1
so has part: feature:1-236:-1:exon
subclass of: SO_0000010

66609363
type: Gene
SIO_000068: ncbigene

position:1:-1
position: 1
reference: sequence
type: ReverseStrandPosition
type: FuzzyPosition

position:236:-1
position: 236
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-236:-1:exon

EXC43_RS03910
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2104
locus tag: EXC43_RS03910
old locus tag: NCTC10119_00799
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010875045.1
note: frameshifted; incomplete; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
pseudo: true
codon start: 1
transl table: 4
product: ParA family protein
SIO_010081: EXC43_RS03910
subclass of: SO_0000673
so part of: EXC43_RS03910
location: complement(<1..236)
location: region:1-236:-1
so has part: feature:1-236:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:1-236:-1:exon

EXC43_RS03915
type: Gene
subclass of: SO_0000704
RO_0002162: 2104
gene: dnaN
locus tag: EXC43_RS03915
pseudo: true
so part of: sequence
location: 983..2127
location: region:983-2127:1
so has part: feature:983-2127:1:exon
subclass of: SO_0000010

66609364
type: Gene
SIO_000068: ncbigene

position:983:1
position: 983
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2127:1
position: 2127
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:983-2127:1:exon

EXC43_RS03915
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2104
gene: dnaN
locus tag: EXC43_RS03915
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010874358.1
GO component: GO:0009360 - DNA polymerase III complex [Evidence IEA]
GO function: GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO process: GO:0006260 - DNA replication [Evidence IEA]
note: frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
pseudo: true
codon start: 1
transl table: 4
product: DNA polymerase III subunit beta
SIO_010081: EXC43_RS03915
subclass of: SO_0000673
so part of: EXC43_RS03915
location: 983..2127
location: region:983-2127:1
so has part: feature:983-2127:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:983-2127:1:exon

EXC43_RS04305
type: Gene
subclass of: SO_0000704
RO_0002162: 2104
locus tag: EXC43_RS04305
so part of: sequence
location: 2131..2490
location: region:2131-2490:1
so has part: feature:2131-2490:1:exon
subclass of: SO_0000010

69060175
type: Gene
SIO_000068: ncbigene

position:2131:1
position: 2131
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2490:1
position: 2490
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2131-2490:1:exon

EXC43_RS04305
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2104
locus tag: EXC43_RS04305
inference: COORDINATES: protein motif:HMM:NF012451.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 4
product: J domain-containing protein
translation: MTLYDLLELPQTATLQEIKTAYKRLAKRYHPDINKQGADTFVKINNAYAVLSDTTQKAEYDAMLRFSEFEDRVKRLDFSISDTNSLWRNYSSTTTGTLTLSATGNTPSQPLPTISILPF
SIO_010081: EXC43_RS04305
subclass of: SO_0000673
so part of: EXC43_RS04305
location: 2131..2490
location: region:2131-2490:1
so has part: feature:2131-2490:1:exon

WP_232018006.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2131-2490:1:exon

EXC43_RS04310
type: Gene
subclass of: SO_0000704
RO_0002162: 2104
locus tag: EXC43_RS04310
old locus tag: NCTC10119_00802
so part of: sequence
location: 2388..2867
location: region:2388-2867:1
so has part: feature:2388-2867:1:exon
subclass of: SO_0000010

69060176
type: Gene
SIO_000068: ncbigene

position:2388:1
position: 2388
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2867:1
position: 2867
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2388-2867:1:exon

EXC43_RS04310
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2104
locus tag: EXC43_RS04310
old locus tag: NCTC10119_00802
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 4
product: hypothetical protein
translation: MEELQFHHNWDFDFIRNREYTQPTPTNNKYSSFLDKDVSLAFYQLYSKGKLDFDLEDTLLRRHSIKQAFLKGKKLNDVLKEQYNYLGWLEAKRYFNIDVEIELTPKEVREGGVVNLPLKIKVISNNYPGQMWYELNKNYSFRLLWDIKNGEVAEFFGKG
SIO_010081: EXC43_RS04310
subclass of: SO_0000673
so part of: EXC43_RS04310
location: 2388..2867
location: region:2388-2867:1
so has part: feature:2388-2867:1:exon

WP_232018007.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2388-2867:1:exon

EXC43_RS04315
type: Gene
subclass of: SO_0000704
RO_0002162: 2104
locus tag: EXC43_RS04315
old locus tag: NCTC10119_00803
so part of: sequence
location: complement(3141..3332)
location: region:3141-3332:-1
so has part: feature:3141-3332:-1:exon
subclass of: SO_0000010

69060177
type: Gene
SIO_000068: ncbigene

position:3141:-1
position: 3141
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3332:-1
position: 3332
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3141-3332:-1:exon

EXC43_RS04315
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2104
locus tag: EXC43_RS04315
old locus tag: NCTC10119_00803
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 4
product: hypothetical protein
translation: MEDTLLRRHSIKQAFLKGKKLNDVLKEQYNYLGWLEAKRYFNIDVEIELTPKEVREGGVVNLL
SIO_010081: EXC43_RS04315
subclass of: SO_0000673
so part of: EXC43_RS04315
location: complement(3141..3332)
location: region:3141-3332:-1
so has part: feature:3141-3332:-1:exon

WP_232018008.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3141-3332:-1:exon

EXC43_RS04320
type: Gene
subclass of: SO_0000704
RO_0002162: 2104
locus tag: EXC43_RS04320
old locus tag: NCTC10119_00804
so part of: sequence
location: complement(3284..3751)
location: region:3284-3751:-1
so has part: feature:3284-3751:-1:exon
subclass of: SO_0000010

69060178
type: Gene
SIO_000068: ncbigene

position:3284:-1
position: 3284
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3751:-1
position: 3751
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3284-3751:-1:exon

EXC43_RS04320
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2104
locus tag: EXC43_RS04320
old locus tag: NCTC10119_00804
inference: COORDINATES: protein motif:HMM:NF012451.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 4
product: J domain-containing protein
translation: MTLYDLLELPQTATLQEIKTAYKRLAKRYHPDINKQGADTFVKINNAYAVLSDTTQKAEYDAMLRFSEFEDRVKRLDFSIKWHEQFMEELQFHHNWDFDFIRNREYTQPTPTNNKYSSFLDKDVSLPFYQLYSKASWTLTWKTHFLDVIRSSKPS
SIO_010081: EXC43_RS04320
subclass of: SO_0000673
so part of: EXC43_RS04320
location: complement(3284..3751)
location: region:3284-3751:-1
so has part: feature:3284-3751:-1:exon

WP_232018009.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3284-3751:-1:exon

EXC43_RS03930
type: Gene
subclass of: SO_0000704
RO_0002162: 2104
gene: dnaN
locus tag: EXC43_RS03930
old locus tag: NCTC10119_00805
so part of: sequence
location: complement(3755..4897)
location: region:3755-4897:-1
so has part: feature:3755-4897:-1:exon
subclass of: SO_0000010

66609367
type: Gene
SIO_000068: ncbigene

position:3755:-1
position: 3755
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4897:-1
position: 4897
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3755-4897:-1:exon

EXC43_RS03930
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2104
gene: dnaN
locus tag: EXC43_RS03930
old locus tag: NCTC10119_00805
EC number: 2.7.7.7
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010874358.1
GO component: GO:0009360 - DNA polymerase III complex [Evidence IEA]
GO function: GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO process: GO:0006260 - DNA replication [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 4
product: DNA polymerase III subunit beta
translation: MKVLINKNELNKILKKLNNVIVSNNKMKPYHSYLLIEATEKEINFYANNEYFSAKCTLAENIDVLEEGEVIVKGKIFSELINGIKEDIIIIQEKDQTLLVKTKKTNINLNTIDKKEFPRIRFNQNVDLKEFDELKIQHSLLTKGLKKIAHAVSTFRESTRKFNGVNFNGSNGKQIFLEASDSYKLSVYEIKQKTDPFNFIVETNLLSFINSFNPEGGDLISIFFRKEHKDDLSTELLIKLDNFLINYTSINESFPRVMQLFDFEPETKVTIQKNELKDALQRILTLAQNERFFLCDMQVTNSHLKINSNVQNIGASLEEVTCLKFEGHKLNIAVNALSLLEHIDSFDTDEIELYFQGSNKYFLISSNNEPELKEILVPSK
SIO_010081: EXC43_RS03930
subclass of: SO_0000673
so part of: EXC43_RS03930
location: complement(3755..4897)
location: region:3755-4897:-1
so has part: feature:3755-4897:-1:exon

WP_014325278.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3755-4897:-1:exon

EXC43_RS03935
type: Gene
subclass of: SO_0000704
RO_0002162: 2104
locus tag: EXC43_RS03935
old locus tag: NCTC10119_00806
pseudo: true
so part of: sequence
location: 5644..>5892
location: region:5644-5892:1
so has part: feature:5644-5892:1:exon
subclass of: SO_0000010

66609368
type: Gene
SIO_000068: ncbigene

position:5644:1
position: 5644
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5644-5892:1:exon

EXC43_RS03935
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2104
locus tag: EXC43_RS03935
old locus tag: NCTC10119_00806
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010875045.1
note: frameshifted; incomplete; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
pseudo: true
codon start: 1
transl table: 4
product: ParA family protein
SIO_010081: EXC43_RS03935
subclass of: SO_0000673
so part of: EXC43_RS03935
location: 5644..>5892
location: region:5644-5892:1
so has part: feature:5644-5892:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:5644-5892:1:exon