Romboutsia ilealis strain CRIB plasmid 1, complete sequence.
type: Entry
definition: Romboutsia ilealis strain CRIB plasmid 1, complete sequence.
sequence version: NZ_LN555524.1
sequence date: 2023-06-22
sequence: sequence
division: CON
label: NZ_LN555524.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMEA2724985
keyword: RefSeq
source: Romboutsia ilealis
organism: Romboutsia ilealis
taxonomy: Bacteria; Bacillota; Clostridia; Eubacteriales; Peptostreptococcaceae; Romboutsia.
reference: 1
comment: REFSEQ INFORMATION: The reference sequence is identical to\nLN555524.1.\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 :: 04/18/2023 02:01:51\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) :: 2,515\nCDSs (total) :: 2,360\nGenes (coding) :: 2,337\nCDSs (with protein) :: 2,337\nGenes (RNA) :: 155\nrRNAs :: 14, 14, 14 (5S, 16S, 23S)\ncomplete rRNAs :: 14, 14, 14 (5S, 16S, 23S)\ntRNAs :: 109\nncRNAs :: 4\nPseudo Genes (total) :: 23\nCDSs (without protein) :: 23\nPseudo Genes (ambiguous residues) :: 0 of 23\nPseudo Genes (frameshifted) :: 7 of 23\nPseudo Genes (incomplete) :: 17 of 23\nPseudo Genes (internal stop) :: 5 of 23\nPseudo Genes (multiple problems) :: 6 of 23\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 6415
topology: circular
so has quality: SO_0000988
location: 1..6415
location: region:1-6415:1
RO_0002162: 1115758

NZ_LN555524
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMEA2724985
type: BioSample
SIO_000068: biosample

1
title: Direct Submission
author: Hornung, B.V.
journal: Submitted (29-APR-2014) WUR, Systems and Synthetic Biology, Dreijenplein 10, 6703HB, Wageningen, Netherlands

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

position:6415:1
position: 6415
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-6415:1:source
so part of: sequence
organism: Romboutsia ilealis
mol type: genomic DNA
strain: CRIB
host: rat
bio material: Ileum
type material: type strain of Romboutsia ilealis
plasmid: 1

1115758
type: Taxonomy
SIO_000068: taxonomy

CRIB_RS12510
type: Gene
subclass of: SO_0000704
RO_0002162: 1115758
locus tag: CRIB_RS12510
old locus tag: CRIB_2522
so part of: sequence
location: complement(161..1054)
location: region:161-1054:-1
so has part: feature:161-1054:-1:exon
subclass of: SO_0000010

82206654
type: Gene
SIO_000068: ncbigene

position:161:-1
position: 161
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1054:-1
position: 1054
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:161-1054:-1:exon

CRIB_RS12510
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1115758
locus tag: CRIB_RS12510
old locus tag: CRIB_2522
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MTNNNNLDIFGLPMDDIDTEREKEIIRAEAKAQKEANLDLDRQWKEENTPKKGIVTKEVWDVPIPTHKDIMMSDLDYQFLGAVLLNSNYGGKANNMYGERFIYKNKLWALDDEENVPKIAKELKISESTFKRRIKTLLNVKLGIVEICNNEDGEIFYKIKYATDYKYFITIKSDMLDELVTSTNSNMIKLYALMHYNLTESVMAEDGTYSYKYIRKQMTYDYMLEQIGYAKSLNRNKVKTMLNSLRKLGFIKMYEIDTPIRKIDKATNTEKILTVKGYEYELCTYEEWLKIDRATNN
SIO_010081: CRIB_RS12510
subclass of: SO_0000673
so part of: CRIB_RS12510
location: complement(161..1054)
location: region:161-1054:-1
so has part: feature:161-1054:-1:exon

WP_180703734.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:161-1054:-1:exon

CRIB_RS12515
type: Gene
subclass of: SO_0000704
RO_0002162: 1115758
locus tag: CRIB_RS12515
old locus tag: CRIB_2523
so part of: sequence
location: complement(1271..2347)
location: region:1271-2347:-1
so has part: feature:1271-2347:-1:exon
subclass of: SO_0000010

82206655
type: Gene
SIO_000068: ncbigene

position:1271:-1
position: 1271
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2347:-1
position: 2347
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1271-2347:-1:exon

CRIB_RS12515
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1115758
locus tag: CRIB_RS12515
old locus tag: CRIB_2523
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MAKLSVNIGDRNKLKALGLDDITLESIERALEQRGSIDIPIDVLVILRDMRCPNNKYGAYSSKKMLLEWSGINSEHKDDINNIIGYYERSKGLLYMDIFNGLDTKTFEAYVEALNGVIKDDIDMLVDKIVSKCNICKSLAKDFLNVYMALRTYNGFIMEYLITQMLLISDRYDVLEQLNINDGVISSRALDKDYGIDILAIPLDVTDVNIPLQLKAQTNFRVRRDKLQKTFDNHKDFKRLYDNIIDKEAKGNVYYLHYDMSSLRVALIQNREFTYALPMSRELEHTIIANPIFKYVEVWDIMEILDRLVEDICYNILDDVETADTEDYVADNVPKMAFKEPNIDFIRFYRNIDISKIF
SIO_010081: CRIB_RS12515
subclass of: SO_0000673
so part of: CRIB_RS12515
location: complement(1271..2347)
location: region:1271-2347:-1
so has part: feature:1271-2347:-1:exon

WP_180703735.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1271-2347:-1:exon

CRIB_RS12520
type: Gene
subclass of: SO_0000704
RO_0002162: 1115758
locus tag: CRIB_RS12520
old locus tag: CRIB_2524
so part of: sequence
location: complement(2399..2971)
location: region:2399-2971:-1
so has part: feature:2399-2971:-1:exon
subclass of: SO_0000010

82206656
type: Gene
SIO_000068: ncbigene

position:2399:-1
position: 2399
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2971:-1
position: 2971
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2399-2971:-1:exon

CRIB_RS12520
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1115758
locus tag: CRIB_RS12520
old locus tag: CRIB_2524
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MAKLQYEVLNKGIEMEEQLYTQLDSYDDKVVGAVDKQIADLKAELEHLTVTANKITLDTDMDEYMANQQRLKELPNLIVDAERERLKLINNKQSYKEDICKGIYREVGSEYVAEFSSNMEALMKEYDKALSTMIAIDKQMRELEADYKNGLYSVMHTKGVYMTIDRASKMYRLHSDHNLNDKSIDLQYAK
SIO_010081: CRIB_RS12520
subclass of: SO_0000673
so part of: CRIB_RS12520
location: complement(2399..2971)
location: region:2399-2971:-1
so has part: feature:2399-2971:-1:exon

WP_180703736.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2399-2971:-1:exon

CRIB_RS12525
type: Gene
subclass of: SO_0000704
RO_0002162: 1115758
locus tag: CRIB_RS12525
old locus tag: CRIB_2525
so part of: sequence
location: complement(3012..3347)
location: region:3012-3347:-1
so has part: feature:3012-3347:-1:exon
subclass of: SO_0000010

82206657
type: Gene
SIO_000068: ncbigene

position:3012:-1
position: 3012
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3347:-1
position: 3347
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3012-3347:-1:exon

CRIB_RS12525
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1115758
locus tag: CRIB_RS12525
old locus tag: CRIB_2525
inference: COORDINATES: protein motif:HMM:NF024422.2
GO function: GO:0043565 - sequence-specific DNA binding [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: helix-turn-helix domain-containing protein
translation: MNEKKAKALELLIKGNSITSIAEEIGVGRCTIYRWINNDEEFREAKKKSEDIILDNLYVVALTELEELLYNGSNYEKIQCATQILKYKKANDVNVKVEKAKTVDEILAELM
SIO_010081: CRIB_RS12525
subclass of: SO_0000673
so part of: CRIB_RS12525
location: complement(3012..3347)
location: region:3012-3347:-1
so has part: feature:3012-3347:-1:exon

WP_159440105.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3012-3347:-1:exon

CRIB_RS12530
type: Gene
subclass of: SO_0000704
RO_0002162: 1115758
locus tag: CRIB_RS12530
old locus tag: CRIB_2526
so part of: sequence
location: complement(3376..3699)
location: region:3376-3699:-1
so has part: feature:3376-3699:-1:exon
subclass of: SO_0000010

82206658
type: Gene
SIO_000068: ncbigene

position:3376:-1
position: 3376
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3699:-1
position: 3699
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3376-3699:-1:exon

CRIB_RS12530
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1115758
locus tag: CRIB_RS12530
old locus tag: CRIB_2526
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MSKKLNLSYLSDTDKMMVDCGFITMILTSTLMDATVGNRLKLTKDQLQLLASDISMAKSLGLWEAHIEEHTVKKCYKRYERLEHIKKLSPTDRERYYQRVSEELFTI
SIO_010081: CRIB_RS12530
subclass of: SO_0000673
so part of: CRIB_RS12530
location: complement(3376..3699)
location: region:3376-3699:-1
so has part: feature:3376-3699:-1:exon

WP_077705982.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3376-3699:-1:exon

CRIB_RS12535
type: Gene
subclass of: SO_0000704
RO_0002162: 1115758
locus tag: CRIB_RS12535
old locus tag: CRIB_2527
so part of: sequence
location: complement(3692..3922)
location: region:3692-3922:-1
so has part: feature:3692-3922:-1:exon
subclass of: SO_0000010

82206659
type: Gene
SIO_000068: ncbigene

position:3692:-1
position: 3692
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3922:-1
position: 3922
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3692-3922:-1:exon

CRIB_RS12535
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1115758
locus tag: CRIB_RS12535
old locus tag: CRIB_2527
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MGDIQYKKAKLKVAIIENDLKTTLDIAKELGLSMRYICNLAEVNVGNVCSYLGGRLPMRDENKTKIYNVIKEVLNV
SIO_010081: CRIB_RS12535
subclass of: SO_0000673
so part of: CRIB_RS12535
location: complement(3692..3922)
location: region:3692-3922:-1
so has part: feature:3692-3922:-1:exon

WP_180703732.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3692-3922:-1:exon

CRIB_RS12540
type: Gene
subclass of: SO_0000704
RO_0002162: 1115758
locus tag: CRIB_RS12540
old locus tag: CRIB_2528
so part of: sequence
location: complement(4915..5529)
location: region:4915-5529:-1
so has part: feature:4915-5529:-1:exon
subclass of: SO_0000010

82206660
type: Gene
SIO_000068: ncbigene

position:4915:-1
position: 4915
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:5529:-1
position: 5529
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4915-5529:-1:exon

CRIB_RS12540
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1115758
locus tag: CRIB_RS12540
old locus tag: CRIB_2528
inference: COORDINATES: similar to AA sequence:RefSeq:WP_003469463.1
GO function: GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO process: GO:0006310 - DNA recombination [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: recombinase family protein
translation: MAVYGYCRCSTDDTKQSVDRQIKDVMELGAEPKLIYTEYESGTKRDRIELNRMLEAISEGDTLIVTELSRISRSMRDLLSILDILKDKKVKVILGAFTLDFTKGDVDPMVMGMVNMMGVFSEMEREITVSRIKSGLATAKAKGKVLGRAKTTLDSIPPLFKKNYVRYKNGELNVTELGRMSEIKSRTTVYKYIKMLEENKGDAE
SIO_010081: CRIB_RS12540
subclass of: SO_0000673
so part of: CRIB_RS12540
location: complement(4915..5529)
location: region:4915-5529:-1
so has part: feature:4915-5529:-1:exon

WP_180703733.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4915-5529:-1:exon

CRIB_RS12545
type: Gene
subclass of: SO_0000704
RO_0002162: 1115758
locus tag: CRIB_RS12545
old locus tag: CRIB_2529
so part of: sequence
location: 5917..6114
location: region:5917-6114:1
so has part: feature:5917-6114:1:exon
subclass of: SO_0000010

82206661
type: Gene
SIO_000068: ncbigene

position:5917:1
position: 5917
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6114:1
position: 6114
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5917-6114:1:exon

CRIB_RS12545
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1115758
locus tag: CRIB_RS12545
old locus tag: CRIB_2529
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MNTKTPNNKVKLQLSIEEKTKKTAKFIALKNDTNISALFEEYIRAIDKNPQLIKLIREATNKSTK
SIO_010081: CRIB_RS12545
subclass of: SO_0000673
so part of: CRIB_RS12545
location: 5917..6114
location: region:5917-6114:1
so has part: feature:5917-6114:1:exon

WP_077705978.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5917-6114:1:exon