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 Ga0244777_10002645

Scaffold Ga0244777_10002645


Overview

Basic Information
Taxon OID3300024343 Open in IMG/M
Scaffold IDGa0244777_10002645 Open in IMG/M
Source Dataset NameCombined assembly of estuarine microbial communities from Columbia River, Washington, USA >3um size fraction
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12187
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (22.22%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

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)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F021755Metagenome / Metatranscriptome217Y
F028487Metagenome191Y
F044492Metagenome154Y
F078708Metagenome116N

Sequences

Protein IDFamilyRBSSequence
Ga0244777_100026454F028487N/AMYNSDILDHLISKYGIDDVIKFCDMESEKNSLLAQSVDEDKQHHPEPNEWKFERDWWADSGKQLKSRI
Ga0244777_100026457F078708N/AMIVQTVHEILNPFDVEVKQLGYAVALFMIVGSIHSNPQFIVRFYNTGQLRTVDQNDLSVYGNPTAGEDLIPDPDVVSKLPANARRNTDFLNKQKEK
Ga0244777_100026458F044492N/AMSDEKQVTVTINRQPSFTEIWHEGSVDFNGRTFMFWLINPRGLDDQGREYEMEVRWWFKQVPMEVRKLSEQIINDFKDAKDDSSNSTRDSKSI
Ga0244777_100026459F021755AGCAGMKRTILKLHDKKYADLIDHNVRECIQKKESYEIEYKGKVMTLTPEELKTKCVGRQYIAVPKFGDRPYHLLSYLWEPTKTTEK
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