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 Ga0102913_1049596

Scaffold Ga0102913_1049596


Overview

Basic Information
Taxon OID3300007560 Open in IMG/M
Scaffold IDGa0102913_1049596 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1560A-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1371
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
Not Available(Source: )

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)46.2638Long. (o)-123.4649Alt. (m)Depth (m)
Location on Map
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Associated Families

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

Sequences

Protein IDFamilyRBSSequence
Ga0102913_10495962F053288N/AMITIKNYNNDMNYGVFFNWDMKYAMEDKGFYSFEFEHRNEQKRVYVLVHRNSKKRTKHVVSEDLHEVYIQDMVSDKWRRTLNLTKPQLNKSAFYNWVESVIDDEYGLPF*
Ga0102913_10495963F022886GGAMFRSQIDIGELELYYEITYYYPTLPSNEYYRITLSRISPPQKDHPHRGEYLMLCGVSEYWLNKKELENVDSVYEAIVDVVVRHNMKVKV*
Ga0102913_10495964F030763AGGMLVIKNYKKIKNQYYGDWQIGRVEEMKECYALQAFNANTKKSITMAIVREPLAEGTETFETAYHFSLVNDDVRPANIIEDVIYHSVLEDMELFGESLVHYLNTI*
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