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 Ga0070743_10003163

Scaffold Ga0070743_10003163


Overview

Basic Information
Taxon OID3300005941 Open in IMG/M
Scaffold IDGa0070743_10003163 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.697
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6099
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (47.62%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F021298Metagenome / Metatranscriptome219Y
F021974Metagenome / Metatranscriptome216Y
F022640Metagenome / Metatranscriptome213Y

Sequences

Protein IDFamilyRBSSequence
Ga0070743_1000316320F021298N/AMSKSVMLSMLAQGNTGAEILQILDTLTDDNQQSIAYAEPTADVIEF*
Ga0070743_100031633F021974GGAMNNTNIVSEIYSYHTNWKEGKVNQMWIEQSGDEYKGYSYVAVAHNPRNGKTMEMSNPRTSYAETLNWVRGWCGTFCVLPA*
Ga0070743_100031639F022640AGGAMRIAFLIATLALGLRVGLSAHATVNEYQEQQADRFCEVNPSYCNPG*
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Institute for Fundamental Biomedical Research
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