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 Ga0208929_1071130

Scaffold Ga0208929_1071130


Overview

Basic Information
Taxon OID3300027227 Open in IMG/M
Scaffold IDGa0208929_1071130 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1548A-02 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)685
Total Scaffold Genes2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
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)46.2319Long. (o)-123.8812Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003541Metagenome / Metatranscriptome480Y
F077298Metagenome / Metatranscriptome117Y

Sequences

Protein IDFamilyRBSSequence
Ga0208929_10711301F077298N/ASTIELNEDGRLITLTLINKKFIFDILELDDVSDYVDVYLFGIKQPQDKYNVVISGNNIVITFVSDVTRLPGEVSVNDFEIKGKIAEIL
Ga0208929_10711302F003541AGCAGMARLIPRKQIEEQQNISGSLDITQNLNVRKDAIISGSMFVSQSFFFGSDTGSKNEITGSVFLTGSLVIDGELRTAAPNTILSVTSSNSLVSVDTQRYAGILAKDFGANVPTLYVSSTDGDDTNDGRTIQFPLRTIKRA
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