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 Ga0102829_1037192

Scaffold Ga0102829_1037192


Overview

Basic Information
Taxon OID3300009026 Open in IMG/M
Scaffold IDGa0102829_1037192 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Freshwater metaG S.575
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1436
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → unclassified Opitutae → Opitutae bacterium Tous-C10FEB(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2Long. (o)-123.94Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001055Metagenome / Metatranscriptome791Y
F092032Metagenome107Y

Sequences

Protein IDFamilyRBSSequence
Ga0102829_10371922F092032AGAAGGVASLFVQSYSVSSGFNNTGTVVNESGLTVTARYDDRRSEITVEGVAKLTSVPQLGATLSFTAKTASAYPGGSASVSFSGVITKVDDRGSSKGFVSVSVTAESYEEITY*
Ga0102829_10371923F001055N/AMSNSIRHVVEATLATYLSTQTGLAGVQILTGDSNVTQTLPKAVVLCDSARAPGDLQEGLGNYECSVRITLFSNADDTTLAVHRERCAALSDCMKSLDLIQAAFAATSGAAICYDVTYRSEDEGIDERSWATSFAFDVLTCLEPQ*
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