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_1017981

Scaffold Ga0208004_1017981


Overview

Basic Information
Taxon OID3300025630 Open in IMG/M
Scaffold IDGa0208004_1017981 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)2241
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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?
F009303Metagenome / Metatranscriptome320Y
F028656Metagenome / Metatranscriptome191N
F037991Metagenome / Metatranscriptome167N
F096246Metagenome / Metatranscriptome105N

Sequences

Protein IDFamilyRBSSequence
Ga0208004_10179811F096246GGAGGMSEISLYKDDNGRKVYKVTTTYTVKTEEFVKVAEGEDPYDIWLDQGGLDYSKINQYCLHEGPHTEAYYAEAFTDGGSDVKYMGTVVPEYDEEYK
Ga0208004_10179813F028656AGGAGMTNKVTLDFFFDREDDWGANYNNQDFFQYNIERLRWCLVEADHLEGNPFTGCIDLNTLEVKDLKAFDLLYSLDHKELMNMVEDKDWDWIGDDFEHMEAYLSFIMQHDRSFCYSVKGEGYKSDSDYLHIETWSIPEKFLESDALRDAYIAGSCNESGDYYVDSDSHGY
Ga0208004_10179814F009303N/AVESTGRTLEVGGVMLNVLKWVATATLIVGFGFFSAGYGFGWYLQITGGFLWLIAGVMMKDKPIIATNALMNTVGIIGKLFG
Ga0208004_10179815F037991AGGAGMTKLAIGSIISAIHDMDREDLNKVVEAVKYARSQAHRQMANTLKSGDTVFFDGRYGKTVKGTVIKTAIKYVQVDCGIDGKWRVPAAHLRLAA

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