3300021275: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.429 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300021275
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114516 | Gp0225726 | Ga0210342
• Sample Name: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.429 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 29791621
• Sequencing Scaffolds: 9
• Novel Protein Genes: 10
• Associated Families: 9

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	7
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	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): 46.302
  • Long. (^o): -123.036
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001506	Metagenome / Metatranscriptome	681	Y
F006508	Metagenome / Metatranscriptome	371	Y
F008361	Metagenome / Metatranscriptome	334	Y
F011154	Metagenome / Metatranscriptome	294	Y
F012917	Metagenome / Metatranscriptome	276	Y
F030135	Metagenome / Metatranscriptome	186	Y
F042355	Metagenome / Metatranscriptome	158	Y
F047147	Metagenome / Metatranscriptome	150	Y
F077370	Metatranscriptome	117	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0210342_109997	Not Available	665
Ga0210342_115875	All Organisms → cellular organisms → Bacteria	1104
Ga0210342_126262	Not Available	602
Ga0210342_138216	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	1727
Ga0210342_144943	Not Available	627
Ga0210342_147795	Not Available	573
Ga0210342_151520	Not Available	506
Ga0210342_160396	Not Available	553
Ga0210342_161902	Not Available	737

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0210342_109997	Ga0210342_1099971	F008361	ELEQATAAVENAETSKARLDASVELKKATARLEAVNYLS
Ga0210342_112386	Ga0210342_1123861	F011154	MRSDEKPLRIESSRPGRFRAWANRSYPEGIRLLLCISTGGRLWRPPEGGLPNERRRKAGQSERPNREGHAASAGPVKTFQAVGDVKNDTADLWTKGNLRVKRRDPWHR
Ga0210342_115875	Ga0210342_1158751	F012917	IDKILNGMILFKFLRFPLNDCGYYDKYSSIPEVNQVWDKKKHLKRKRWSQE
Ga0210342_126262	Ga0210342_1262621	F047147	LIYSVIIVAVTEGLVREEQLLHDMCILSTTTVEITQILTRAGPILGL
Ga0210342_138216	Ga0210342_1382163	F001506	RILYEKRCKCNEEFSIIKKRKPKTRSEGKPLEYPQSSEITSKTFQIKYHKNLSTTAKCILNSFHNKYIYYAIDDILYLLKAKPVERDNLLAVLYSPILSLQNNFSVNFFDIWIREVYIDEISKNNKFLKNDSTTLKQFNYITIKFFYKTRVPVKKQASLW
Ga0210342_144943	Ga0210342_1449431	F006508	VALANALSKAVADQSQVVKTRMTNRRRVLTWFASRWRNHQPKRAEK
Ga0210342_147795	Ga0210342_1477952	F042355	MSSDLKKLNKLKKNSRRVQEPKLVERLIKISRVSKVTKG
Ga0210342_151520	Ga0210342_1515201	F077370	VNNKQSRNRRNNRKRILKNNSHQLAVSRPMSILGKTNDRAIDILVNIFAVNLLGTPFYSFAVSAGSPQVSANLTDLMILQFTEYSELAQIYGLVKLKKIQLGFTRSSNYIGGGTTILQNTPSIFLQASTIPYNVGTVSLQRAIAQSDNSIEIDLQTYDPKSYDILLPP
Ga0210342_160396	Ga0210342_1603961	F006508	VALANAPSKAVADQCQMVKTRKRNRRRVLTWFASRWRNHQPKRAEKPHSKSGFARS
Ga0210342_161902	Ga0210342_1619021	F030135	ATLSSFTDIWHSTKAGRQFPDAILPGKEAIDLVAGPLN