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 Ga0102874_1062919

Scaffold Ga0102874_1062919


Overview

Basic Information
Taxon OID3300007546 Open in IMG/M
Scaffold IDGa0102874_1062919 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1547A-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1189
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

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)46.2314Long. (o)-123.8828Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005504Metagenome / Metatranscriptome398Y
F013184Metagenome / Metatranscriptome273Y
F049617Metagenome / Metatranscriptome146Y

Sequences

Protein IDFamilyRBSSequence
Ga0102874_10629191F049617GGAMTPEDIGLPPHLQRMVNYNVSGLDIMHGELKNLMLIAEQELADAQAIEDETEEAMDSMDRTRCE
Ga0102874_10629194F013184AGGAGLNNYNFVIKLAGSVLANNEKEAHAKINAHLDDLGDVDSTRYDLGWPEVSWDMEYDLC*
Ga0102874_10629196F005504N/AEEETGWGGEYEIVRGEVKELAEWENRCYACQSFDTLSYCEDDCGEFCSECNEGSWQDEKAMAECQTHSVLLPLKTYTQEEALNG*
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