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 Ga0102879_1039346

Scaffold Ga0102879_1039346


Overview

Basic Information
Taxon OID3300007549 Open in IMG/M
Scaffold IDGa0102879_1039346 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1548B-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1532
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families4

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)46.2319Long. (o)-123.8812Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002092Metagenome / Metatranscriptome594Y
F018537Metagenome234Y
F018924Metagenome232N
F030760Metagenome / Metatranscriptome184N

Sequences

Protein IDFamilyRBSSequence
Ga0102879_10393461F018924N/AMTNSEKAIAQLFGVLCSIVKSEHTPQMTKQATINTFQKLIGEEGSPFLDDELIKLSTAMDMEMQSIVRQLNGDRVLNEVLTNNINLN*
Ga0102879_10393462F018537N/AMASNRTSNYIATIPMKNEEQVLEVKKVLEQIFGWVTLRGRHSDRKSVVKSWGRSRQNDVPWRVAQYIDIYLHHDNPNRIRIWKKQGMERKNLQLNDTNVMIARTLGSMGYSLADGVKHTKQSRPSSPLMAIRELQYQTQMKDPKFQRKEMKRKYMNKSYKLQKGDWGYIAQELLDYTYLCNRVSFSQLKSHYDIVMRGNATTQNGGSFIHHLHSLIDMRNAIGRRCGRYLYKDTDGKYKVSNI*
Ga0102879_10393463F030760N/AMHDIEIVSKSGDTITIKGLSYSIIMNIASNNTELKSITITKQYEKKIK*
Ga0102879_10393464F002092N/AYLNGNPIVANFINKLNIQRKDYNVKADMPSQYQDIVVEVGQKYISLWVGTGCWGFISRVDGDLKGSPIKKGDLLKAATWKAPAKHARGNIIDGTARYSTYGPEYL*
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