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 Ga0126319_1273934

Scaffold Ga0126319_1273934


Overview

Basic Information
Taxon OID3300010147 Open in IMG/M
Scaffold IDGa0126319_1273934 Open in IMG/M
Source Dataset NameSoil microbial communities from California, USA to study soil gas exchange rates - BB-CA-RED metaT (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1488
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Groundwater → Unclassified → Soil → Soil Microbial Communities From Various Locations In Usa And Cambodia To Study Soil Gas Exchange Rates

Source Dataset Sampling Location
Location NameBig Basin, California
CoordinatesLat. (o)37.1932Long. (o)-122.2204Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000280Metagenome / Metatranscriptome1383Y
F019913Metagenome / Metatranscriptome227Y
F090360Metagenome / Metatranscriptome108Y

Sequences

Protein IDFamilyRBSSequence
Ga0126319_12739343F019913GGAMPSGDSPQKAQQFYDYLLAHHQTERPVQAWYVNWYSLAWVWGFVAALSVILIWWVLQYRTTRQKEVYLVDTWSGYTSELAGPATRFFVLLTAILVGFAVAIIVGHIVNGQIF*
Ga0126319_12739344F090360N/AMAAAPPFVSYSTMSETVVAADDWPMLYASLQAHKAHVQEYPGCQRMEVYVAVDDEGSMRLHCYTTWDTPEQLEVFVDRGYTFERLLADVGVSPAERSLVMEKLF*
Ga0126319_12739345F000280GGAGMPRRRKIPARPLSGYRDVGGHGVRHTRQTVIRAWVILAFLIAAYLTWTLIIYFLE
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