NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0209296_1000566

Scaffold Ga0209296_1000566


Overview

Basic Information
Taxon OID3300027759 Open in IMG/M
Scaffold IDGa0209296_1000566 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Simoncouche, Canada to study carbon cycling - S_130206_EF_MetaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)32233
Total Scaffold Genes43 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)34 (79.07%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater Lake → Freshwater Microbial Communities From Northern Lakes Of Canada To Study Carbon Cycling

Source Dataset Sampling Location
Location NameLake Simoncouche, Canada
CoordinatesLat. (o)48.2311Long. (o)-71.2508Alt. (m)Depth (m)1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001182Metagenome755Y
F001424Metagenome / Metatranscriptome698Y
F003407Metagenome / Metatranscriptome488Y
F006063Metagenome / Metatranscriptome382Y

Sequences

Protein IDFamilyRBSSequence
Ga0209296_100056617F003407GGAGVNNELPPALDACLDLVNDLLHPEVYGHAIPTEVKARAFVVKTMLERLKARMETSTWPEA
Ga0209296_100056619F001182GGAGGMNPTPSCPKDLFEFVCTIEDVDLVCFLEYCPAEKGSVDSYFAPYEPDLDESMTLNNAYIFDTNVDIAHIILQGLVDHIEVTALAKYKDGDE
Ga0209296_100056625F001424AGGAMHRLSTNLDFIEDERVFCHQCANAEMVEQRQSMPAEQMERHRKVNAKPLQWMFDQAKIKGGWATVTWSEHQCAKTGLAAFPTDVKHRCHLFQAKASAVESEAWWLT
Ga0209296_100056628F006063GAGGMTDLLTALHLSVVMLDLKIRMMEAIDEGRFDLAMTYYLLILVRTDELEAHKWAMSPKAWAIYETIHP
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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