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Sample 3300022364
3300022364: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.665 (Metagenome Metatranscriptome)
Overview
Basic Information
IMG/M Taxon OID 3300022364 Open in IMG/M GOLD Reference Gs0114516 | Gp0225751 | Ga0210367 Sample Name Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.665 (Metagenome Metatranscriptome) Sequencing Status Permanent Draft Sequencing Center DOE Joint Genome Institute (JGI) Published? N Use Policy Open
Dataset Contents
Total Genome Size 21100635 Sequencing Scaffolds 4 Novel Protein Genes 5 Associated Families 5
Dataset Phylogeny
Taxonomy Groups Number of Scaffolds Not Available 1 All Organisms → cellular organisms → Eukaryota 1 All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobulbaceae → unclassified Desulfobulbaceae → Desulfobulbaceae bacterium 1 All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium 1
Ecosystem and Geography
Ecosystem Assignment (GOLD)
Name Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series Type Environmental Taxonomy Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series
Alternative Ecosystem Assignments
Environment Ontology (ENVO) estuarine biome → estuary → sediment Earth Microbiome Project Ontology (EMPO) Free-living → Saline → Water (saline)
Location Information
Location USA: Washington Coordinates Lat. (o ) 46.286 Long. (o ) -124.052 Alt. (m) N/A Depth (m) 0 Location on Map
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Associated Families
Family Category Number of Sequences 3D Structure?
F014219 Metagenome / Metatranscriptome 264 Y F016971 Metagenome / Metatranscriptome 243 Y F054544 Metagenome / Metatranscriptome 139 Y F064269 Metagenome / Metatranscriptome 128 Y F099324 Metagenome / Metatranscriptome 103 Y
Associated Scaffolds
Scaffold Taxonomy Length IMG/M Link Ga0210367_102159 Not Available 564 Open in IMG/M Ga0210367_103275 All Organisms → cellular organisms → Eukaryota 521 Open in IMG/M Ga0210367_103435 All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobulbaceae → unclassified Desulfobulbaceae → Desulfobulbaceae bacterium 516 Open in IMG/M Ga0210367_103718 All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium 510 Open in IMG/M
Sequences
Scaffold ID Protein ID Family Sequence
Ga0210367_101732 Ga0210367_1017321 F064269 VLLSVCMVFACVPEVLYWLFGINMKRSTSRKLKSLIPTTLVNVKRYLGSTLHYFLSSTNNVVNTLLLPTKEQRLQRPSKRKALDRMFFMFLLMNHGRVSAKSARRTSYRVRPGLSEIPQAIPQDLSAEMLAPWDSIPQGWSQRLLNGNELKQFDPDNVIPVSETIDPNTGTINPASWLIQSAPRLPEFQVPKLFIL Ga0210367_102159 Ga0210367_1021591 F014219 MILSINKQSLLLEFAGTKSCSKWVNSNENDWLLGAITGKCEEKDGELVCALRAR Ga0210367_103275 Ga0210367_1032751 F054544 SNPHLGPMRIAQACDNGTVKLVKVAENNGGAVSQTWNIRNVEPRMA Ga0210367_103435 Ga0210367_1034351 F099324 NIEGEDYKSGSPPRGGYSRTTQHKALVSEACNIEANNLVGADFMGDDRTRRVYFSQCMLRNGYDTDGNYVGIPPE Ga0210367_103718 Ga0210367_1037181 F016971 MNQIAQPLLDEEKRAVEVVVYIKKDLGEEQQDLVISALEQTNGIMGAEFCVMRNHLVLAKYDRDIMSSQDVLKSFNSLNLEARLIGPI
