LOCUS OFV46270 165 aa linear BCT 17-OCT-2016
DEFINITION oxidoreductase [Klebsiella sp. HMSC09D12].
ACCESSION OFV46270
VERSION OFV46270.1
DBLINK BioProject: PRJNA269915
BioSample: SAMN03609714
DBSOURCE accession LUAR01000189.1
KEYWORDS HIGH_QUALITY_DRAFT.
SOURCE Klebsiella sp. HMSC09D12
ORGANISM Klebsiella sp. HMSC09D12
Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria;
Enterobacterales; Enterobacteriaceae; Klebsiella/Raoultella group;
Klebsiella.
REFERENCE 1 (residues 1 to 165)
AUTHORS Mitreva,M., Pepin,K.H., Mihindukulasuriya,K.A., Fulton,R.,
Fronick,C., O'Laughlin,M., Miner,T., Herter,B., Rosa,B.A.,
Cordes,M., Tomlinson,C., Wollam,A., Palsikar,V.B., Mardis,E.R. and
Wilson,R.K.
TITLE Direct Submission
JOURNAL Submitted (11-FEB-2016) McDonnell Genome Institute, Washington
University School of Medicine, 4444 Forest Park, St. Louis, MO
63108, USA
COMMENT Annotation was added by the NCBI Prokaryotic Genome Annotation
Pipeline (released 2013). Information about the Pipeline can be
found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
The WUSC is a large strain collection isolated from clinical
samples. Each sample is associated with metadata, including source,
isolation site, 16s rRNA, metabolic, and other phenotypic
information. The goal is to sample an adequate number of important,
yet minor species, further adding to the catelogue of sequenced
bacterial genomes and improving the diversity of the genomes
available to the public. WGS will be preformed on approximely 550
isolates. Samples were selected based on RDP analysis at the genus
level. This project is co-owned with the Human Microbiome Project
DACC.
Coding sequences were predicted using GeneMark v3.3 and Glimmer3
v3.02. Intergenic regions not spanned by GeneMark and Glimmer3 were
blasted against NCBI's non-redundant (NR) database and predictions
generated based on protein alignments. tRNA genes were determined
using tRNAscan-SE 1.23 and non-coding RNA genes by RNAmmer-1.2 and
Rfam v8.1. The final gene set is processed through several programs
such as Kegg (Release 56), psortB (Version 3.0.3) and Interproscan
(Version 4.7) to determine possible function. Gene product names
are determined by BER (Version 2.5). Gene names are generated at
the contig level and may not necessarily reflect any known order or
orientation between contigs.
##Genome-Assembly-Data-START##
Finishing Goal :: High-Quality Draft
Current Finishing Status :: High-Quality Draft
Assembly Method :: Velvet v. 1.1.04
Genome Coverage :: 102x
Sequencing Technology :: Illumina
##Genome-Assembly-Data-END##
##Genome-Annotation-Data-START##
Annotation Provider :: NCBI
Annotation Date :: 03/04/2016 11:57:39
Annotation Pipeline :: NCBI Prokaryotic Genome
Annotation Pipeline
Annotation Method :: Best-placed reference protein
set; GeneMarkS+
Annotation Software revision :: 3.1
Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;
repeat_region
Genes (total) :: 5,855
CDS (total) :: 5,783
Genes (coding) :: 5,629
CDS (coding) :: 5,629
Genes (RNA) :: 72
rRNAs :: 1, 2, 3 (5S, 16S, 23S)
complete rRNAs :: 1 (5S)
partial rRNAs :: 2, 3 (16S, 23S)
tRNAs :: 58
ncRNAs :: 8
Pseudo Genes (total) :: 154
Pseudo Genes (ambiguous residues) :: 0 of 154
Pseudo Genes (frameshifted) :: 31 of 154
Pseudo Genes (incomplete) :: 116 of 154
Pseudo Genes (internal stop) :: 20 of 154
Pseudo Genes (multiple problems) :: 10 of 154
##Genome-Annotation-Data-END##
FEATURES Location/Qualifiers
source 1..165
/organism="Klebsiella sp. HMSC09D12"
/strain="HMSC09D12"
/isolation_source="Urinary Tract"
/host="Homo sapiens"
/db_xref="HMP:3178"
/db_xref="taxon:1581146"
Protein 1..165
/product="oxidoreductase"
Region 1..165
/region_name="COG3915"
/note="Uncharacterized conserved protein [Function
unknown]"
/db_xref="CDD:443120"
CDS 1..165
/locus_tag="HMPREF3178_24810"
/coded_by="complement(LUAR01000189.1:9632..10129)"
/inference="EXISTENCE: similar to AA
sequence:RefSeq:WP_004852358.1"
/note="Derived by automated computational analysis using
gene prediction method: Protein Homology."
/transl_table=11
ORIGIN
1 mrlifaalfc vmvlpsafae klpapvgkpv ltisglitnt negdtavfdv aaleklgmet
61 ivtttpwysg kvrfdgvsls klmdlvgakg ksarvlalnd yttivpiddf hkfpvilalk
121 mngeymrird kgplfivypy dsspelqnqi yysrsawqvs kiiie
//