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 Ga0102865_1013353

Scaffold Ga0102865_1013353


Overview

Basic Information
Taxon OID3300007639 Open in IMG/M
Scaffold IDGa0102865_1013353 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1449C-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2295
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (14.29%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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)46.2327Long. (o)-123.9168Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F019478Metagenome229Y
F022886Metagenome / Metatranscriptome212N
F030763Metagenome / Metatranscriptome184N
F053288Metagenome141N

Sequences

Protein IDFamilyRBSSequence
Ga0102865_10133532F030763GAGMLVIKNYKKIKNQYFGDWQIGRVEEMKECYALQAFNANTKKSITMAIVREPLAEATETFETAYHFSLVEDDVRPANIIEDVIYHSVLEDMELFGESLVHYLNTL*
Ga0102865_10133533F022886N/AMITIKNWDKLTRLFRSQIDIGELELYYEITYYYPTLPSNEYYRITLSRISPPQQDHPHKDEYLMLCGVSEYWLNKKELENVNSVYDAIVDVVVRHNLKVRV*
Ga0102865_10133534F053288N/AMITIKNYNSDVGHATFYGWDMKYALEDKDFYSFEFEHRNEQKRVYVLVHRNSKKRTKHVVSEDLHEVYIQDMVSDKWRRTVNLEKRSLNKSAFYNWVESVIDDEYPLPF*
Ga0102865_10133536F019478N/AMVGTQFWNGRFTCLRVHETDTNYRFQFDDSEVPSRYVWIEVSKIGRIDNEGDWSYSLNYMRCNQHLVTAKWFENWKNVTKTFGDALKKQF*
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