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 Ga0102859_1020601

Scaffold Ga0102859_1020601


Overview

Basic Information
Taxon OID3300007708 Open in IMG/M
Scaffold IDGa0102859_1020601 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1371B-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1718
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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)46.2342Long. (o)-123.9167Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000450Metagenome / Metatranscriptome1126Y
F007644Metagenome / Metatranscriptome347Y
F038241Metagenome / Metatranscriptome166Y

Sequences

Protein IDFamilyRBSSequence
Ga0102859_10206012F007644AGGAMTKSSYFLEYMKLHLISLEQDLEENPASIHVVDIEGQIYATRHLLSVATDIMNSTNERYNNDNI*
Ga0102859_10206014F038241GGAGGMLGYTKTDLDEMINSVHDAKLFYIRNSDVEQVDQDPLVEGLLKANDFLQGLWAEGYFD*
Ga0102859_10206017F000450N/ALYGHWAGHNMLSNLADAIIASRPRWTDESYATRIAISQLVGDQWNMETGWGLQVNSISDNEHKIPVIDFNQQTFSLHEQDDWANVQNKVRGMKNEAIFTQDLTSFCEKYADKLVSV*
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