Mesorhizobium amorphae CCNWGS0123 plasmid pM0123c.
type: Entry
definition: Mesorhizobium amorphae CCNWGS0123 plasmid pM0123c.
sequence version: NZ_CP015321.1
sequence date: 2023-04-27
sequence: sequence
division: CON
label: NZ_CP015321.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN04853078
keyword: RefSeq
source: Mesorhizobium amorphae CCNWGS0123
organism: Mesorhizobium amorphae CCNWGS0123
taxonomy: Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales; Phyllobacteriaceae; Mesorhizobium.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP015321.1.\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/\nThis genome has a base modification file available.\n\n##Genome-Assembly-Data-START##\nAssembly Method :: Celera Assembler v. 8.1\nGenome Coverage :: 134.86X\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/27/2023 03:22:01\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 6,961\nCDSs (total) :: 6,899\nGenes (coding) :: 6,671\nCDSs (with protein) :: 6,671\nGenes (RNA) :: 62\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 52\nncRNAs :: 4\nPseudo Genes (total) :: 228\nCDSs (without protein) :: 228\nPseudo Genes (ambiguous residues) :: 0 of 228\nPseudo Genes (frameshifted) :: 146 of 228\nPseudo Genes (incomplete) :: 159 of 228\nPseudo Genes (internal stop) :: 39 of 228\nPseudo Genes (multiple problems) :: 96 of 228\n##Genome-Annotation-Data-END##

sequence
subclass of: SO_0000155
sequence length: 7607
topology: linear
so has quality: SO_0000987
location: 1..7607
location: region:1-7607:1
RO_0002162: 1082933

NZ_CP015321
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN04853078
type: BioSample
SIO_000068: biosample

1
title: Resequencineg of Mesorhizobium amorphae CCNWGS0123 and comparative plasmidome of 23 symbiotic plasmids from Rhizobia
author: Wang, X.
author: Liu, D.
author: Luo, Y.
author: Huo, H.
author: Wei, G.
journal: Unpublished

2
title: Direct Submission
author: Wang, X.
author: Liu, D.
author: Luo, Y.
author: Huo, H.
author: Wei, G.
journal: Submitted (20-APR-2016) College of Life Science, Northwest A&F University, State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, 22 Xinong Road, Yangling 712100, China

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

position:7607:1
position: 7607
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-7607:1:source
so part of: sequence
organism: Mesorhizobium amorphae CCNWGS0123
mol type: genomic DNA
strain: CCNWGS0123
host: Robinia pseudoacacia
plasmid: pM0123c
country: China: Gansu
collection date: 2006-07-24

1082933
type: Taxonomy
SIO_000068: taxonomy

A6B35_RS30050
type: Gene
subclass of: SO_0000704
RO_0002162: 1082933
locus tag: A6B35_RS30050
old locus tag: A6B35_29990
so part of: sequence
location: complement(<1..654)
location: region:1-654:-1
so has part: feature:1-654:-1:exon
subclass of: SO_0000010

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

position:654:-1
position: 654
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-654:-1:exon

A6B35_RS30050
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1082933
locus tag: A6B35_RS30050
old locus tag: A6B35_29990
inference: COORDINATES: similar to AA sequence:RefSeq:WP_006205784.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: ArdC-like ssDNA-binding domain-containing protein
translation: MDRKSNKSRVDIYAKITDRIVADLEKGVRPWVKPWSVANTTGRITRPLRHNGLPYQGINTLLLWSEAVARGFVSPVWMTFKQSAELGGQVRKGETGSMVVYASRFTRTETDAHGEEVERGIPFLKAYTVFCADQIEGLPAHYYAAPEPAADPVQRIEHADRFFDNTGAVVRYGGDKAYYCPSTDHVQLPSPEVFRDMASFVATRAHETLHWTSAHHRL
SIO_010081: A6B35_RS30050
subclass of: SO_0000673
so part of: A6B35_RS30050
location: complement(<1..654)
location: region:1-654:-1
so has part: feature:1-654:-1:exon

WP_065518339.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1-654:-1:exon

A6B35_RS30055
type: Gene
subclass of: SO_0000704
RO_0002162: 1082933
locus tag: A6B35_RS30055
old locus tag: A6B35_29995
so part of: sequence
location: complement(985..1572)
location: region:985-1572:-1
so has part: feature:985-1572:-1:exon
subclass of: SO_0000010

position:985:-1
position: 985
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1572:-1
position: 1572
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:985-1572:-1:exon

A6B35_RS30055
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1082933
locus tag: A6B35_RS30055
old locus tag: A6B35_29995
inference: COORDINATES: similar to AA sequence:RefSeq:WP_013913793.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MSSSTRSTKTKARVVQLRKGTTLEMVRLCCPDGRQATLISESFGLPVLDSDGIREFHERSLIEGADTLSEGLSEKAMQIHLQRIVGSHVGSAYGAGQFYSKAVTEAKDATAKLANDTRDEDIDGPVGFDSKAQRKREFAAEMGLQAHALRMAAEGAVAAYEHVVGEAWKPYERQTENPGQTVNRQAADLQMAALG
SIO_010081: A6B35_RS30055
subclass of: SO_0000673
so part of: A6B35_RS30055
location: complement(985..1572)
location: region:985-1572:-1
so has part: feature:985-1572:-1:exon

WP_006205783.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:985-1572:-1:exon

A6B35_RS30065
type: Gene
subclass of: SO_0000704
RO_0002162: 1082933
locus tag: A6B35_RS30065
old locus tag: A6B35_30000
so part of: sequence
location: 2085..2393
location: region:2085-2393:1
so has part: feature:2085-2393:1:exon
subclass of: SO_0000010

position:2085:1
position: 2085
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2393:1
position: 2393
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2085-2393:1:exon

A6B35_RS30065
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1082933
locus tag: A6B35_RS30065
old locus tag: A6B35_30000
inference: COORDINATES: similar to AA sequence:RefSeq:WP_003524944.1
GO component: GO:0005829 - cytosol [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: alkylphosphonate utilization protein
translation: MTDHNDDYVYDDTTGEWRSASEMAAIKASAGSIEVRDAAGTMLADGDSVVLVKDLKVKGAGQTLKQGTVIKSIRLTDNPQEIDCRHDAIKGLVLRTEFVRKR
SIO_010081: A6B35_RS30065
subclass of: SO_0000673
so part of: A6B35_RS30065
location: 2085..2393
location: region:2085-2393:1
so has part: feature:2085-2393:1:exon

WP_006205782.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2085-2393:1:exon

A6B35_RS30070
type: Gene
subclass of: SO_0000704
RO_0002162: 1082933
locus tag: A6B35_RS30070
old locus tag: A6B35_30005
so part of: sequence
location: complement(2407..2730)
location: region:2407-2730:-1
so has part: feature:2407-2730:-1:exon
subclass of: SO_0000010

position:2407:-1
position: 2407
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2730:-1
position: 2730
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2407-2730:-1:exon

A6B35_RS30070
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1082933
locus tag: A6B35_RS30070
old locus tag: A6B35_30005
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010915959.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MSIPDRRAELFRMEEARRQTQCQFDMIDRQIMRRMTAIIPQLTPKCAGYRRGRGLEPAMFLERYRANLAAITLERQHEIDPLSRKLARQDAAIEALRARPPPDLMRA
SIO_010081: A6B35_RS30070
subclass of: SO_0000673
so part of: A6B35_RS30070
location: complement(2407..2730)
location: region:2407-2730:-1
so has part: feature:2407-2730:-1:exon

WP_006205781.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2407-2730:-1:exon

A6B35_RS30075
type: Gene
subclass of: SO_0000704
RO_0002162: 1082933
locus tag: A6B35_RS30075
old locus tag: A6B35_30010
so part of: sequence
location: complement(2730..3614)
location: region:2730-3614:-1
so has part: feature:2730-3614:-1:exon
subclass of: SO_0000010

position:3614:-1
position: 3614
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2730-3614:-1:exon

A6B35_RS30075
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1082933
locus tag: A6B35_RS30075
old locus tag: A6B35_30010
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010915958.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MTARTSETHDVETPGFPGVTFGRSADGLCVALVGEHAFAMAPARDGRHYLVTGWRIRRPMAEWMRGDFYGHGGELADEAAFRAHVEENALHQQQRAALGRREIHSRAHTPWGMSQGATVYAEGVVAHSTAGHGGFHLSAERNRKVHEMLRANDGCYEEDCHWAAVAQAFPQLFTDFEKACAEKSIRDWYPDAWEAIHGRVLEPGQSAKKDERAFFEKHTDDWVVVSAIRSEYQAGFTEVVATPGRKRGPGTEERRFLVPTDEYHVGRFGFVIDVARHRIYGGPSSLMDWQGRDT
SIO_010081: A6B35_RS30075
subclass of: SO_0000673
so part of: A6B35_RS30075
location: complement(2730..3614)
location: region:2730-3614:-1
so has part: feature:2730-3614:-1:exon

WP_006205780.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2730-3614:-1:exon

A6B35_RS30080
type: Gene
subclass of: SO_0000704
RO_0002162: 1082933
locus tag: A6B35_RS30080
old locus tag: A6B35_30015
so part of: sequence
location: complement(3611..4087)
location: region:3611-4087:-1
so has part: feature:3611-4087:-1:exon
subclass of: SO_0000010

position:3611:-1
position: 3611
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4087:-1
position: 4087
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3611-4087:-1:exon

A6B35_RS30080
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1082933
locus tag: A6B35_RS30080
old locus tag: A6B35_30015
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010915957.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MSAQLIHDLVPLGSIVTYSDGSPRPPERHRKKFAAWENRNGGGRLIRKQAEARVGSTTLPASITLHKGDYGSQGTFVLRIHQTFSVNSDLKFSVRERPAIGTVLVLDRAGDDAELVHLAANRTAAEEWLTRHRYPNAVLRQVTADIVAADTVEGRTAA
SIO_010081: A6B35_RS30080
subclass of: SO_0000673
so part of: A6B35_RS30080
location: complement(3611..4087)
location: region:3611-4087:-1
so has part: feature:3611-4087:-1:exon

WP_006205779.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3611-4087:-1:exon

A6B35_RS30085
type: Gene
subclass of: SO_0000704
RO_0002162: 1082933
locus tag: A6B35_RS30085
old locus tag: A6B35_30020
so part of: sequence
location: complement(4185..5930)
location: region:4185-5930:-1
so has part: feature:4185-5930:-1:exon
subclass of: SO_0000010

position:4185:-1
position: 4185
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:5930:-1
position: 5930
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4185-5930:-1:exon

A6B35_RS30085
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1082933
locus tag: A6B35_RS30085
old locus tag: A6B35_30020
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010915956.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: ParB N-terminal domain-containing protein
translation: MELKFVDPRALKDNPDKARRSKSSPQADALLLATIRAVGIVQPPVVALETDGGNGYVIDAGHRRVRQAIAAGLEEIAVLVIERAEDGGAMRSLAETLAHEQLNPVDQWRAIERLVALGWTEEAIAVALALPVRQIRKLRLLANVLPAMLDQMAKGDMPNEKELRTIASASLDEQKEVWKKHKPSKTDPQVSWWSVAQGLTKRRMYARDASFGDDLTQAYGIAWVEDLFAPADQDSRYTTDVEAFLGAQQEWMANTVPKRGVIVEAGQWGEPKLPPKAERVYGKPSKSDHTAMYLDRDGKVQSVAYRMPAAKKPKGKNGADVEADGDDIVVTAKPRPDVTRKGMEMIGDLRTDALHEALSRAPIGDDTLMALLVLAFAGQNVTVASGARDISYYGAAGLGDHAARLFNHEGKLEFDIDTLRLAVRSLLIDVLSCRENRSDSGVVARVAGDVIAADNFLANMGTEDFLSCLSRQALEAACADTSVLPRQKVKDTRAALVEHFKEGRFVHPSALFAPTPEKLTFWLKKNEAREQPEDDGTPEGQDELEGDAVVEPAHDYVGEDPAPQEEDLTEGQIEAYKVAAE
SIO_010081: A6B35_RS30085
subclass of: SO_0000673
so part of: A6B35_RS30085
location: complement(4185..5930)
location: region:4185-5930:-1
so has part: feature:4185-5930:-1:exon

WP_006205778.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4185-5930:-1:exon

A6B35_RS30090
type: Gene
subclass of: SO_0000704
RO_0002162: 1082933
locus tag: A6B35_RS30090
old locus tag: A6B35_30025
pseudo: true
so part of: sequence
location: 6402..7510
location: region:6402-7510:1
so has part: feature:6402-7510:1:exon
subclass of: SO_0000010

position:6402:1
position: 6402
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:7510:1
position: 7510
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6402-7510:1:exon

A6B35_RS30090
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1082933
locus tag: A6B35_RS30090
old locus tag: A6B35_30025
inference: COORDINATES: similar to AA sequence:RefSeq:WP_076612246.1
GO function: GO:0004803 - transposase activity [Evidence IEA]
note: frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
pseudo: true
codon start: 1
transl table: 11
product: IS110 family transposase
SIO_010081: A6B35_RS30090
subclass of: SO_0000673
so part of: A6B35_RS30090
location: 6402..7510
location: region:6402-7510:1
so has part: feature:6402-7510:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:6402-7510:1:exon