Mycoplasmopsis pulmonis strain NCTC10139 plasmid 2.
type: Entry
definition: Mycoplasmopsis pulmonis strain NCTC10139 plasmid 2.
sequence version: NZ_LR215009.1
sequence date: 2022-12-13
sequence: sequence
division: CON
label: NZ_LR215009.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMEA4434529
keyword: RefSeq
source: Mycoplasmopsis pulmonis (Mycoplasma pulmonis)
organism: Mycoplasmopsis pulmonis
taxonomy: Bacteria; Tenericutes; Mollicutes; Mycoplasmataceae; Mycoplasmopsis.
reference: 1
comment: REFSEQ INFORMATION: The reference sequence is identical to\nLR215009.1.\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 :: 12/13/2022 06:04:31\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) :: 800\nCDSs (total) :: 764\nGenes (coding) :: 757\nCDSs (with protein) :: 757\nGenes (RNA) :: 36\nrRNAs :: 2, 1, 1 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 1, 1 (5S, 16S, 23S)\ntRNAs :: 29\nncRNAs :: 3\nPseudo Genes (total) :: 7\nCDSs (without protein) :: 7\nPseudo Genes (ambiguous residues) :: 0 of 7\nPseudo Genes (frameshifted) :: 4 of 7\nPseudo Genes (incomplete) :: 4 of 7\nPseudo Genes (internal stop) :: 3 of 7\nPseudo Genes (multiple problems) :: 3 of 7\n##Genome-Annotation-Data-END##

sequence
subclass of: SO_0000155
sequence length: 11284
topology: linear
so has quality: SO_0000987
location: 1..11284
location: region:1-11284:1
RO_0002162: 2107

NZ_LR215009
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMEA4434529
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:11284:1
position: 11284
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-11284:1:source
so part of: sequence
organism: Mycoplasmopsis pulmonis
mol type: genomic DNA
strain: NCTC10139
serovar: not available: to be reported later
isolation source: lung
host: rat
culture collection: NCTC:10139
type material: type strain of Mycoplasma pulmonis
plasmid: 2
collection date: 1900/1973

2107
type: Taxonomy
SIO_000068: taxonomy

EXC36_RS03920
type: Gene
subclass of: SO_0000704
RO_0002162: 2107
locus tag: EXC36_RS03920
old locus tag: NCTC10139_00785
so part of: sequence
location: complement(555..1082)
location: region:555-1082:-1
so has part: feature:555-1082:-1:exon
subclass of: SO_0000010

position:555:-1
position: 555
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1082:-1
position: 1082
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:555-1082:-1:exon

EXC36_RS03920
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2107
locus tag: EXC36_RS03920
old locus tag: NCTC10139_00785
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: MSQKDQAPQVPQKQPEDPKKPETQKPPVKSEDQNKEPQDPKAPEKQAETPKDPQVKDMANKNIQGPKVPEKQAQTPKDPEIKNMDQKDQAPQEPQKQPEASKKPETQSLLQILKVVIHNKKISNQKFKKLLKSQKLLKLKSHKIQEILKTMQMIKAKLKKIQMYKNDGKIQELLK
SIO_010081: EXC36_RS03920
subclass of: SO_0000673
so part of: EXC36_RS03920
location: complement(555..1082)
location: region:555-1082:-1
so has part: feature:555-1082:-1:exon

WP_129690543.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:555-1082:-1:exon

EXC36_RS03925
type: Gene
subclass of: SO_0000704
RO_0002162: 2107
locus tag: EXC36_RS03925
old locus tag: NCTC10139_00786
so part of: sequence
location: complement(1088..1522)
location: region:1088-1522:-1
so has part: feature:1088-1522:-1:exon
subclass of: SO_0000010

position:1088:-1
position: 1088
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1522:-1
position: 1522
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1088-1522:-1:exon

EXC36_RS03925
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2107
locus tag: EXC36_RS03925
old locus tag: NCTC10139_00786
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: MKKSKKITFIAIFSTLILSPMALVSCVTTKSNNQIDPSAKQNTKQTSPQSAPKENNTNTNGNSIISPQNPDSSKTPETQVPPTKPEDQNKEPQSPKDPEIKDNGQKNEGPKAPETKEMEQKDQGSKTPEIKDMNQKNEGPKLLK
SIO_010081: EXC36_RS03925
subclass of: SO_0000673
so part of: EXC36_RS03925
location: complement(1088..1522)
location: region:1088-1522:-1
so has part: feature:1088-1522:-1:exon

WP_129690545.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1088-1522:-1:exon

EXC36_RS03930
type: Gene
subclass of: SO_0000704
RO_0002162: 2107
locus tag: EXC36_RS03930
old locus tag: NCTC10139_00787
so part of: sequence
location: complement(2523..3404)
location: region:2523-3404:-1
so has part: feature:2523-3404:-1:exon
subclass of: SO_0000010

position:2523:-1
position: 2523
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3404:-1
position: 3404
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2523-3404:-1:exon

EXC36_RS03930
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2107
locus tag: EXC36_RS03930
old locus tag: NCTC10139_00787
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: MIFSTIILAPTALVSCGTSNTPKTPNNSTNNTPNNNSNNTQNNSSNNTQNNNSNNSPNNTPNNNSNNTQNNNSNNNSNNTQNNETRKPESNTPSNPPKQEEMPNKPSDKKWWEVQGESKVELLAVSSDGKNLNLTFKEEIPAGIKTKVSIKKDDQNSTEEKTFDLVTTKSKTQTISLGDLEKAKWKISKILFGLSTYTPTKNNTFDSNIIANTSDEEFNKIKAYLEKHLFAIKDDRKNLANFSNLSLNDFDLKLNPKSTDKANDIFTFTKETLDENQLTNVEMKFLLNQQMKI
SIO_010081: EXC36_RS03930
subclass of: SO_0000673
so part of: EXC36_RS03930
location: complement(2523..3404)
location: region:2523-3404:-1
so has part: feature:2523-3404:-1:exon

WP_129690547.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2523-3404:-1:exon

EXC36_RS03935
type: Gene
subclass of: SO_0000704
RO_0002162: 2107
gene: tig
locus tag: EXC36_RS03935
old locus tag: NCTC10139_00788
so part of: sequence
location: 4237..5520
location: region:4237-5520:1
so has part: feature:4237-5520:1:exon
subclass of: SO_0000010

position:4237:1
position: 4237
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5520:1
position: 5520
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4237-5520:1:exon

EXC36_RS03935
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2107
gene: tig
locus tag: EXC36_RS03935
old locus tag: NCTC10139_00788
EC number: 5.2.1.8
inference: COORDINATES: protein motif:HMM:TIGR00115.1
GO component: GO:0005854 - nascent polypeptide-associated complex [Evidence IEA]
GO function: GO:0003755 - peptidyl-prolyl cis-trans isomerase activity [Evidence IEA]; GO:0051082 - unfolded protein binding [Evidence IEA]
GO process: GO:0051083 - 'de novo' cotranslational protein folding [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 4
product: trigger factor
translation: MSIKTYDKENSEIHVKTPVESTLWKQSQKKAFNKLKSKINIPGFRKNSSSPQFDKIARAKISKNDIWAKAIDETLNSTFEIARKELDKEDLERILGRANYRVSKITEDEAEIEFFWPVRPEIEDFKYKNLNVKFKEVKVTKKDIDQRIQSLMEMGAPIEESNEPAELENEMVFDFKGFIDGEEFEGGSAEEFKLKLGSKSFIPGFEDQLVGLKAGDEKEIKVTFPADYYVEEYAGKESVFKILVHKVFKPKAKEINDETIKELGFKGVSNLEQLKEYLRPSIEHKLLEDSLTEFKNEAFNKIKELNDIKIPRGLLLEEMTAINEKFNETLKAQGLKRREYLEMTKLSEEKVAEQVKKEAITKINEYLIFEQIKKAENVTISDDIIEDHYNIMAKNYNIEVDKIKEFIPVDKLKEDPNLLNEQLFWNF
SIO_010081: EXC36_RS03935
subclass of: SO_0000673
so part of: EXC36_RS03935
location: 4237..5520
location: region:4237-5520:1
so has part: feature:4237-5520:1:exon

WP_129690549.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4237-5520:1:exon

EXC36_RS03940
type: Gene
subclass of: SO_0000704
RO_0002162: 2107
locus tag: EXC36_RS03940
old locus tag: NCTC10139_00790
so part of: sequence
location: 5607..5828
location: region:5607-5828:1
so has part: feature:5607-5828:1:exon
subclass of: SO_0000010

position:5607:1
position: 5607
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5828:1
position: 5828
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5607-5828:1:exon

EXC36_RS03940
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2107
locus tag: EXC36_RS03940
old locus tag: NCTC10139_00790
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: MDKKLENILEDENKKALTIVTQLVRAFFISSSKIFSNFYPLFFPSFWTFGFLAFPKALAFSKALCHLLLKVSK
SIO_010081: EXC36_RS03940
subclass of: SO_0000673
so part of: EXC36_RS03940
location: 5607..5828
location: region:5607-5828:1
so has part: feature:5607-5828:1:exon

WP_129690551.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5607-5828:1:exon

EXC36_RS03945
type: Gene
subclass of: SO_0000704
RO_0002162: 2107
gene: tig
locus tag: EXC36_RS03945
old locus tag: NCTC10139_00791
so part of: sequence
location: complement(5921..7093)
location: region:5921-7093:-1
so has part: feature:5921-7093:-1:exon
subclass of: SO_0000010

position:5921:-1
position: 5921
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:7093:-1
position: 7093
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5921-7093:-1:exon

EXC36_RS03945
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2107
gene: tig
locus tag: EXC36_RS03945
old locus tag: NCTC10139_00791
EC number: 5.2.1.8
inference: COORDINATES: protein motif:HMM:TIGR00115.1
GO component: GO:0005854 - nascent polypeptide-associated complex [Evidence IEA]
GO function: GO:0003755 - peptidyl-prolyl cis-trans isomerase activity [Evidence IEA]; GO:0051082 - unfolded protein binding [Evidence IEA]
GO process: GO:0051083 - 'de novo' cotranslational protein folding [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 4
product: trigger factor
translation: MSIKTYDKENSEIHVKTPVESTLWKQSQKKAFNKLKSKINIPGFRKNSSSPQFDKIARAKISKNDIWAKAIDETLNSTFEIARKELDKEDLERILGRANYRVSKITEDEAEIEFFWPVRPEIEDFKYKNLNVKFKEVKVTKKDIDQRIQSLMEMGAPIEESNEPAELENEMVFDFKGFIDGEEFEGGSAEEFKLKLGSKSFIPGFEDQLVGLKAGDEKEIKVTFPADYYVEEYAGKESVFKILVHKVFKPKAKEINDETIKELGFKGVSNLEQLKEYLRPSIEHKLLEDSLTEFKNEAFNKIKELNDIKIPRGLLLEEMTAINEKFNETLKAQGLKRREYLEMTKLSEEKVAEQVKKEAITKINEYLIFEQIKKAENVTISDDIIEIIII
SIO_010081: EXC36_RS03945
subclass of: SO_0000673
so part of: EXC36_RS03945
location: complement(5921..7093)
location: region:5921-7093:-1
so has part: feature:5921-7093:-1:exon

WP_129690553.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5921-7093:-1:exon

EXC36_RS03950
type: Gene
subclass of: SO_0000704
RO_0002162: 2107
locus tag: EXC36_RS03950
old locus tag: NCTC10139_00792
so part of: sequence
location: 7926..9542
location: region:7926-9542:1
so has part: feature:7926-9542:1:exon
subclass of: SO_0000010

position:7926:1
position: 7926
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:9542:1
position: 9542
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:7926-9542:1:exon

EXC36_RS03950
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2107
locus tag: EXC36_RS03950
old locus tag: NCTC10139_00792
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: MIFSTIILAPTALVSCGTSNTPKTPNNSTNNTPNNNSNNTQNNSSNNTQNNNSNNSPNNTPNNNSNNTQNNNSNNNSNNTQNNETRKPESNTPSNPPKQEEMPNKPSDKKWWEVQGESKVELLAVSSDGKNLNLTFKEEIPAGIKTKVSIKKDDQNSTEEKTFDLVTTKSKTQTISLGDLEKAKWKISKILFGLSTYTPTKNNTFDSNIIANTSDEEFNKIKAYLEKHLFAIKDDRKNLANFSNLSLNDFDLKLNPKSTDKANDIFTFTKETLDENQLTNVEMKISFESTNEDIVNKKRSVAIKVQIGDKVAVVKNLEWNFKTNLEIVNQYVKDNPSYKELENHLINTYFSQRQGIHPFEIPTFRKYNWENISLKDEVVASFSKFGTLDDYNGNATLHFTIKRGNVKKGIEITIGNFAKVGNYESGYDGAKRSVDFELKSSSHGGNYKVDYVFTHYNRTNDYWYTSSEKEPTVEFAWRGGIRNLIYGFELLIWNDPRYYKENSYVVEYKESANGEWKALDTLVKDVKPFEKTSALFKK
SIO_010081: EXC36_RS03950
subclass of: SO_0000673
so part of: EXC36_RS03950
location: 7926..9542
location: region:7926-9542:1
so has part: feature:7926-9542:1:exon

WP_129690555.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:7926-9542:1:exon

EXC36_RS03955
type: Gene
subclass of: SO_0000704
RO_0002162: 2107
locus tag: EXC36_RS03955
old locus tag: NCTC10139_00793
so part of: sequence
location: 9806..9997
location: region:9806-9997:1
so has part: feature:9806-9997:1:exon
subclass of: SO_0000010

position:9806:1
position: 9806
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:9997:1
position: 9997
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:9806-9997:1:exon

EXC36_RS03955
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2107
locus tag: EXC36_RS03955
old locus tag: NCTC10139_00793
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: MKKSKKITFIAIFSTLILSPMALVSCVTTKSNNQIDPSAKQNTKQTSPQSAPKENNTILMETQ
SIO_010081: EXC36_RS03955
subclass of: SO_0000673
so part of: EXC36_RS03955
location: 9806..9997
location: region:9806-9997:1
so has part: feature:9806-9997:1:exon

WP_129690557.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:9806-9997:1:exon

EXC36_RS03960
type: Gene
subclass of: SO_0000704
RO_0002162: 2107
locus tag: EXC36_RS03960
so part of: sequence
location: 10043..10774
location: region:10043-10774:1
so has part: feature:10043-10774:1:exon
subclass of: SO_0000010

position:10043:1
position: 10043
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:10774:1
position: 10774
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:10043-10774:1:exon

EXC36_RS03960
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2107
locus tag: EXC36_RS03960
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: MPPTKPEDQNKEPQSPKDPEIKDNGQKNEGPKAPETKEMEQKDQGSKTPEIKDMNQKNEGPKAPEIKDMSQKDQAPQVPQKQPEDPKKPETQKPPVKSEDQNKEPQDPKAPEKQAETPKDPQVKDMANKISKVQKFQKNKHRLLKILKLKIWIKKIKLLKSHKNSQRLLKNQRLKSLLQILKVVIHNKKISNQKFKKLLKSQKLLKLKSHKIQEILKTMQMIKAKLKKIQMYKNDGKIQELLK
SIO_010081: EXC36_RS03960
subclass of: SO_0000673
so part of: EXC36_RS03960
location: 10043..10774
location: region:10043-10774:1
so has part: feature:10043-10774:1:exon

WP_129690559.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:10043-10774:1:exon