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 Ga0102828_1065693

Scaffold Ga0102828_1065693


Overview

Basic Information
Taxon OID3300007559 Open in IMG/M
Scaffold IDGa0102828_1065693 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Freshwater metaG S.541
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)857
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)46.2Long. (o)-123.94Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003290Metagenome / Metatranscriptome495Y
F010386Metagenome / Metatranscriptome304Y

Sequences

Protein IDFamilyRBSSequence
Ga0102828_10656931F003290AGGAGMSNPTTPFSWQMPTATDLVTDLPADFEVFGQAVATSLADLLGGASGYILAKNSATDMDFVWIAN
Ga0102828_10656932F010386N/ASGLGYIYEDAQGRISYASADHRSIYLATNGYTDVSAAQALANSLFVQTRAGDIRNEIVLKYGTNSNSEVTDSDADSILAYGKLAQIITTTVKHQNDAEDQAAFYLTLRAYPQANFNQITFELTNSEIDDADRDALIGIFMGLPLRITNLPLNMASGTYLGFVEGWSWRASYNSVSVTAILSPLSFSLQAMQWQDVSALEAWNTISGSLNWADALVVA*
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