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 Ga0070744_10046782

Scaffold Ga0070744_10046782


Overview

Basic Information
Taxon OID3300006484 Open in IMG/M
Scaffold IDGa0070744_10046782 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.535
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1271
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
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F035302Metagenome172Y
F049622Metagenome146Y
F065780Metagenome / Metatranscriptome127Y

Sequences

Protein IDFamilyRBSSequence
Ga0070744_100467822F065780AGGAMKKVLNYLADNTWTWAGTGLVLITLSGTTFKQALILTAIAIVIHSVITLGTKEDQ*
Ga0070744_100467823F049622AGGAMKKAQDIAQRLLSLFMANALAIVTGSAIVGGIPVWKAAALAGFTAVAQVAEKLAKASVDGNLTAQEISDAFGGIGKKIVKKK*
Ga0070744_100467824F035302N/AMKSNYTGNKDGLATGERKGLTVFIKELCALYPALWNNGSFVNRSMRGKQGVLSVHATGRAVDLSFRFMPKEKRGIKEGGRKQAMEAIDFVVQNHNAFGLEAILDYFPIPHGRGWRCDRSSWSVYTKQQIHGAPMGDWVHFEISPAMADNPDAMRKAFADLKIVA*
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