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 Ga0256314_1002506

Scaffold Ga0256314_1002506


Overview

Basic Information
Taxon OID3300025749 Open in IMG/M
Scaffold IDGa0256314_1002506 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from St. Lawrence River, New York, United States - Law_Miss_RepC_8h (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2213
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Alteromonadales → Idiomarinaceae → Idiomarina → unclassified Idiomarina → Idiomarina sp.(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: New York
CoordinatesLat. (o)45.0061Long. (o)-74.7949Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F021249Metagenome / Metatranscriptome219Y
F090375Metagenome / Metatranscriptome108Y

Sequences

Protein IDFamilyRBSSequence
Ga0256314_10025061F021249N/ALLGKLTIKMTPTQTNKLFYPKSSYDIMLTDSNANKIKLIEGFITLSRSVTI
Ga0256314_10025064F090375AGGAGVSVRRLVPLHAVVLDSDPINSRIGDLYYNSVENALKFYDGAAWNLVGGGAITGLLDHVHTYD

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