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lab » Lactobacillus plantarum WCFS1

Lactobacillus plantarum WCFS1

Summary

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Data source name wcfs1
Full name Lactobacillus plantarum WCFS1 External
Taxonomy Lineage Bacteria; Firmicutes; Bacilli; Lactobacillales; Lactobacillaceae; Lactobacillus.

Genome Information

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Chromosomes
Name Size (bp) Genes
Chromosome Chromosome 3,308,273 3,146
pWCFS103 pWCFS103 36,069 43
pWCFS102 pWCFS102 2,365 4
pWCFS101 pWCFS101 1,917 3
Total 3,348,624 3,196
Features FeaturesView : 0 features

Genes

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List GenesView csv txt FAA
Geneset GenesetView
Function category GeneCategoryView csv txt
Annotation Gene Annotation WordCloudView

Tools and analysis

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BLAST2
KazusaMart Dataset wcfs1

Genome-scale data

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Proteome
Interactome
Transcriptome
Bibliome References from Kazusa GeneIndexing articles External

Bibliography

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References
Gene Indexing Kazusa GeneIndexing articles External Feed-icon

Resources

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Data dowonload Distribution of Sequence and Annotated Data Files (FTP) External
Sequence data INSDB DNA DataBank FlatFiles External
Social genome annotation
DAS service
NCBI Taxonomy Taxonomy ID: 220668 External
KEGG GENOME External
UniProt taxonomy:220668 in UniProt External

API

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Genomes Chromosomes/Plasmids
Genes File format:
ColumnDescription or example
1Data source nameSynechocystis
2IDslr1311
3Chromosome nameChr
4Start position7229
5End position8311
6Orientation+ or -
7Definitionphotosystem II D1 protein
Protein sequences /lab/wcfs1/genes.faa -- AminoAcids sequence in Fasta format.
Nucleotide sequences
Gene symbols /lab/wcfs1/genes/search/dsn/gene_symbol.txt (File format)
GeneIndex gnames /lab/wcfs1/genes/search/dsn/gi_gname.txt (File format)
Gene function category File format:
ColumnDescription or example
1Gene IDsll0084
2Gene Deffinitionputative phosphatase
3First category IDA
4First category nameAmino acid biosynthesis
5Second category IDA1
6Second category nameAromatic amino acid family
Gene annotation word clouds /lab/wcfs1/genes/word_cloud.txt -- tab delimitered text format.
File format:
ColumnDescription or example
1Word
2CountInteger
/lab/wcfs1/genes/word_cloud?style=plain -- Plain view in html
/lab/wcfs1/genes/word_cloud?c=10 -- 10 counts cut-off in html.
GO Terms by ipr2go /api/lab/wcfs1/genes/goterm.txt (File format)
InterProScan matches /api/lab/wcfs1/genes/interpro.txt (File format)

Kazusa DNA Research Institute

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