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_1001403

Scaffold Ga0208004_1001403


Overview

Basic Information
Taxon OID3300025630 Open in IMG/M
Scaffold IDGa0208004_1001403 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)9313
Total Scaffold Genes24 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)23 (95.83%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
Not Available(Source: )

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?
F032640Metagenome179Y
F073494Metagenome120Y
F087434Metagenome110N

Sequences

Protein IDFamilyRBSSequence
Ga0208004_100140311F032640GAGGMRVIDKKISAMITKGLNGKAFDRKITKRDRVVSNGEGQVSVFLWGTEIASFDAQANEIVVKSGGYQTVTTKSRMNALLWDWAQGNPSISQRKWVWYVWTICPLTKDQKSQEFQGVARFPLKVWR
Ga0208004_100140312F073494AGGAGMSDKAWESNEISLWVNNDESLYRLARTSRNASDFFEGLEMLGVYELGGVVLTLENVKESWEVAQAE
Ga0208004_10014039F087434GGAGGMEHKGMKYLDAHKRWISQAKELLPQVPDFQPDFVKSLDQRIETGNPLTPKQFKSLKKVVFLLKKRTEGK
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