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 Ga0208797_1008294

Scaffold Ga0208797_1008294


Overview

Basic Information
Taxon OID3300027186 Open in IMG/M
Scaffold IDGa0208797_1008294 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Ebb tide non-ETM metaG S.555 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1507
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families3

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)46.2Long. (o)-123.94Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F018537Metagenome234Y
F018924Metagenome232N
F030760Metagenome / Metatranscriptome184N

Sequences

Protein IDFamilyRBSSequence
Ga0208797_10082942F018924N/AMTNSEKAIAQLFGVLCSIIKSEHTPQMTKQATINTFQHLIGEEGSPFLDDELIKLSTAMDMEMQSIVRQLNGDRMLNEVLSNNVNLN
Ga0208797_10082943F018537N/AMASNRTSNYIATIPMKNEEQVLEVKKVLEQIFGWVTLRGRHSDRKSVVKSWGKSRQNDVPWRVAQYIDIYLHHDNPNRIRIWKKQGMERKNLQLNDTNVMIARTLGSMGYSLADGVKHTQQSRPSSPLMAIRELQYQTQMKDPKFQRKEMKRKYMNKSYKLQKGDWGYIAQELLDYTYLCNRVSFSQLKSHYDIVMRGNATTQNGGSFIHHLHSLIDMRNAIGRRCGRYLYKDTDGKYKVSNI
Ga0208797_10082944F030760N/AMNYKTIHDIEIVSKSGDKITIKGLSYSTIMNIASNNTELKSITITKQYEKKIK
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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