3300022361: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.378 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300022361
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114516 | Gp0225721 | Ga0210337
• Sample Name: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.378 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 16463678
• Sequencing Scaffolds: 3
• Novel Protein Genes: 3
• Associated Families: 3

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	3

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): 46.313
  • Long. (^o): -123.997
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F006508	Metagenome / Metatranscriptome	371	Y
F030135	Metagenome / Metatranscriptome	186	Y
F053305	Metagenome / Metatranscriptome	141	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0210337_103149	Not Available	751
Ga0210337_105249	Not Available	609
Ga0210337_107493	Not Available	530

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0210337_103149	Ga0210337_1031492	F030135	EEFAKLSSTSDIWHSTFIGCQLPDAILPGTEAFDLVAGPLD
Ga0210337_105249	Ga0210337_1052493	F006508	VAVANAPLKAVADQSQVVKTRRPNRRRVLTWFASRWRNHQPKRAEKPHS
Ga0210337_107493	Ga0210337_1074931	F053305	MLKKSLSIVLTALFVFSFIAVGTVSAAEVKGEVVSVNAETGEMVIKDDAGEMKTLMADPKVVDLKMLKEGDMVSVE