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 Ga0208546_1004403

Scaffold Ga0208546_1004403


Overview

Basic Information
Taxon OID3300025585 Open in IMG/M
Scaffold IDGa0208546_1004403 Open in IMG/M
Source Dataset NameAqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Sum_0.19_D_<0.8_DNA (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3996
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (66.67%)
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 → Coastal → Unclassified → Aqueous → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series

Source Dataset Sampling Location
Location NameUSA: Delaware Bay
CoordinatesLat. (o)39.283Long. (o)-75.3633Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005320Metagenome / Metatranscriptome405Y
F074881Metagenome / Metatranscriptome119Y
F088893Metagenome / Metatranscriptome109N

Sequences

Protein IDFamilyRBSSequence
Ga0208546_10044034F088893GGAGVQTGVKHIDKNQIIFDVEGNTFKVRIGQDLDLEEVYTVLVSAVVHLEELALGMVAHPESQELH
Ga0208546_10044035F074881AGGAMVFNIEPNEAAFIVRVIGQLPTESGAFPLHQKLVAQFQEQEKQTETVDAE
Ga0208546_10044036F005320AGGAMSIDSMKPVKVAGELYWSNWMKEYNKKFNEANDKYECTLGQLSDAACAKLEELGIKLKDKDTMGKYIVGKSKFLFEPVDEEGNPVDISKIGNGTKCYALVSSYRHKMSAKFGAAPSIKKIVITELKVYSPEGAEEEETADDIL

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