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 Ga0102877_1020270

Scaffold Ga0102877_1020270


Overview

Basic Information
Taxon OID3300007548 Open in IMG/M
Scaffold IDGa0102877_1020270 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1548B-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1957
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families2

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)46.2319Long. (o)-123.8812Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005845Metagenome / Metatranscriptome388Y
F025271Metagenome / Metatranscriptome202N

Sequences

Protein IDFamilyRBSSequence
Ga0102877_10202701F005845N/AMKTTPIDFRRWQLHIRKACVNCNRPDKSETIKAWSVNWTLLGRILQAKNA*
Ga0102877_10202702F025271N/AMTPEYTLQAACVKLFKLLKPHEEGRLFLNLNNPRSRTNGHFLKGIGLTAGVADMTYLSNNGAIFLEFKAEKGKQSLSQKWWQGVVQEAGYRYEVIRSIEDFQRVVASVE*

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