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 Ga0102918_1006279

Scaffold Ga0102918_1006279


Overview

Basic Information
Taxon OID3300007593 Open in IMG/M
Scaffold IDGa0102918_1006279 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1563A-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2924
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (22.22%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
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)46.2103Long. (o)-123.7517Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F015599Metagenome / Metatranscriptome253Y
F018537Metagenome234Y

Sequences

Protein IDFamilyRBSSequence
Ga0102918_10062794F018537N/AMASNRTSNYIATIPMKNEEQVLEVKKVLEQIFGWVTLRGRHSDRKSVVKSWGRSRQNDVPWRVAQYIDIYLHHDNPNRIRIWKKQGMERKNLQLNDTNVMIARTLGSMGYSLADGVKHTKQSRPSSPLMAIRELQYQTQMKDPKFQRKEMKRKYMNKSYKLQKGDWGYIAQELLDYTYLCNRVSFSQLKSFYDIVMRGNATTQNGGSFIHHLHSLIDARNAIGRRCGRYLYKDTDGKYKVSNI*
Ga0102918_10062797F015599GGTGGMKLTIKNYEKLFRREWDDKNYIEDIDERRDEYKISVWRGHMRHFIILNRRPVDNGYYTIGKWSNEAFCVRYPYWIKHEDIVNIDSLMDKLKLMTDEWKPKLL*
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