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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Sample 3300021850

3300021850: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.761 (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300021850 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)
Gs0114516 | Gp0225756 | Ga0210372
Sample NameMetatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.761 (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size25903554
Sequencing Scaffolds5
Novel Protein Genes6
Associated Families6

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available5

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameEstuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series
TypeEnvironmental
TaxonomyEnvironmental → 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 biomeestuarysediment
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Water (saline)

Location Information
LocationUSA: Washington
CoordinatesLat. (o)46.286Long. (o)-124.052Alt. (m)N/ADepth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000203Metagenome / Metatranscriptome1619Y
F001346Metagenome / Metatranscriptome718Y
F001758Metagenome / Metatranscriptome640Y
F006508Metagenome / Metatranscriptome371Y
F041496Metagenome / Metatranscriptome160Y
F077370Metatranscriptome117Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0210372_108367Not Available546Open in IMG/M
Ga0210372_116214Not Available547Open in IMG/M
Ga0210372_117156Not Available805Open in IMG/M
Ga0210372_132682Not Available731Open in IMG/M
Ga0210372_146729Not Available701Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0210372_107726Ga0210372_1077261F001758QAGWHDPSQAEMQVSGAEAKFTGSSGEVRASSEHAKKELGGEER
Ga0210372_108367Ga0210372_1083672F006508VAVANAPLKAVADQSQVVKTRRPNRRRVLTWFASRWRNHQPKRAEKPHSKFNAARCWTALLRGR
Ga0210372_116214Ga0210372_1162141F041496AFIRPEPAGLVSCRIRSWGHPPELCSSRAAVRCSQRRSPLGVTIAFRVLLHAGVRHSVQRFRLKTERVALLGLCPSRVFTPSALARPSPVLPSCGYLPGRKRPNRIHFRVSHAEGTARFSRNRRPSWGSWPLGRHPRSSIAWIRESPPKAPGVRHRPLVSPSLNPCSALPQPKITSLSASPP
Ga0210372_117156Ga0210372_1171561F001346MLKNDTADLWTKGNLRVKRRDPWHRANALSKAAADPALSGEDADQKTQTCLDLVRKPVAQPPAQAS
Ga0210372_132682Ga0210372_1326821F000203HSLFPVPALGASGAAGFPTLFSTASGVSGLVAGPSSASPLLDFE
Ga0210372_146729Ga0210372_1467291F077370MNQPRIVNNKQSRNRRNNRKRILKNNSHQLAVPRPMSILGKTNDRAIDILVNIFAVNSLGTPFYSFAVSAGSPQVSANLTDLMILQFTEYSELAQIYGLVKLKKIQLGFTRSSNYIGGGTTILQNTPSIFLQASTIPYNVGTVSLQRAIA

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