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 Ga0208800_1000324

Scaffold Ga0208800_1000324


Overview

Basic Information
Taxon OID3300027193 Open in IMG/M
Scaffold IDGa0208800_1000324 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Freshwater metaG S.541 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6812
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (11.76%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families2

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)46.2Long. (o)-123.94Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003786Metagenome / Metatranscriptome468N
F038230Metagenome166N

Sequences

Protein IDFamilyRBSSequence
Ga0208800_100032410F038230N/AMNNKQDCNAYMKEYMKKYRATMNEYTYKKIRERENLRLRAKYHAMTDEERQKYIEYQRTYHKLKQFINE
Ga0208800_10003249F003786N/AMSNLTKYQPRNSDEQAIITARSNRIANMEQKDAYKQTLNVISSVFPMYGIDGDLAFYANIAKEIVKTFGQLAANEIEIAFRMFSAETLELDDDVKFYGKANMHTIGKILNGYMTYRRKIIASHDNEVAALRHQVQMEERGRLEKEKLYAEFPTMIKEFTGKTFEDVPLYWYDMCLKFDMITYEEGEKRALWEEAQAIALKEPAESLDLLTIRSHAKKIEQGNMKRAVVIAQKLAVWRKVIKK
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