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 Ga0102861_1014893

Scaffold Ga0102861_1014893


Overview

Basic Information
Taxon OID3300007544 Open in IMG/M
Scaffold IDGa0102861_1014893 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1449B-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1896
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
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)46.2327Long. (o)-123.9168Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F031406Metagenome / Metatranscriptome182Y
F061679Metagenome131N
F081246Metagenome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0102861_10148933F081246GGAMDRFDYYLEFMSMRLDDPDFSLMYGVNEYDRWYSDYMEILNQKHSEPMEENKP*
Ga0102861_10148934F061679GGAGMHCTICDKMLNDYESTRKTLDGKYLDMCQDCYTGLDVLIPTIDRKDLLHEADTPLIDEIFDEYGDYQAYINNDDL*
Ga0102861_10148935F031406AGGAGGMNQNHNEEARYHFIMMDFVDLIGDYGYDTVMDDLSTAIADKVNRLVGRAVMEDNDD*
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Institute for Fundamental Biomedical Research
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