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 Ga0244777_10016417

Scaffold Ga0244777_10016417


Overview

Basic Information
Taxon OID3300024343 Open in IMG/M
Scaffold IDGa0244777_10016417 Open in IMG/M
Source Dataset NameCombined assembly of estuarine microbial communities from Columbia River, Washington, USA >3um size fraction
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4660
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (13.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families2

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)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F026559Metagenome / Metatranscriptome197N
F028095Metagenome192Y

Sequences

Protein IDFamilyRBSSequence
Ga0244777_100164172F028095N/AMSEQTYMNLKDAVKRPTLTNENINRENKHFKRVVDKYQKWCTDEGGYKDSRVTYENDIIDCLFETDTDGYALATFLKERAYIEPDSELVDILDCVSNVKYSLTKQIIGQWTKENFLEIPSDVIGKKVNAKQGYKKYENHYITGIKPETYQVTVSDNINKKGGYIVEFENVTFL
Ga0244777_100164175F026559N/AMKYDVIERYAWYFPDEGIEVSVYREPTYFRRFVMWLFLNAELRVCYKTIDTSLVKTS
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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