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 Ga0208004_1030872

Scaffold Ga0208004_1030872


Overview

Basic Information
Taxon OID3300025630 Open in IMG/M
Scaffold IDGa0208004_1030872 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_Fall_15_>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)1571
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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?
F001807Metagenome / Metatranscriptome631Y
F020342Metagenome / Metatranscriptome224Y

Sequences

Protein IDFamilyRBSSequence
Ga0208004_10308723F020342N/AMSAFTDGINLFDRINLAACARRRASANVLDSTRFEGEYDTARLWMKYRLIKTTNYSYIED
Ga0208004_10308724F001807GAGGMTVLAIEHTEITDTHVTVTAVVDEMRLLYRATYFEPEEWAPALCQTTIELDPEEPIPLDEDGFCAYLDQLDPQWQLLDKDDIE

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