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_1051353

Scaffold Ga0208004_1051353


Overview

Basic Information
Taxon OID3300025630 Open in IMG/M
Scaffold IDGa0208004_1051353 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)1111
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → Viruses → unclassified viruses → Circular genetic element sp.(Source: UniRef50)

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?
F020017Metagenome / Metatranscriptome226Y
F066838Metagenome / Metatranscriptome126Y

Sequences

Protein IDFamilyRBSSequence
Ga0208004_10513531F066838GGAVGSEYFINSQELEDKVRDLLPSQGGAGAGFDLSASTQIIPIIDLTESAEGSNLRQDLQSSFSLKSITHTETINATNNLVTNTGYFR
Ga0208004_10513533F020017N/ATRGMTNQAGFGALAPLFGTASRFLGSKSGQIVTGVGTAVGLGSTQFMGMNGREKPVLTQSRRNKAKVRQLVNFMGIEGTANFLSQSMNVNVTPNDVVALLLRTFRNDGAYITKAQVRNLRRTTNRFKSLEKQVKEATSMSRTTRRAPVRRASSTTLIKN
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