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 Ga0126317_10904534

Scaffold Ga0126317_10904534


Overview

Basic Information
Taxon OID3300011332 Open in IMG/M
Scaffold IDGa0126317_10904534 Open in IMG/M
Source Dataset NameSoil microbial communities from California, USA to study soil gas exchange rates - SR-CA-SC2 metaT (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1336
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (100.00%)
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 → 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 NameStunt Ranch Reserve, CA
CoordinatesLat. (o)34.0938Long. (o)-118.6572Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000818Metagenome / Metatranscriptome878Y
F004649Metagenome / Metatranscriptome429Y
F020088Metagenome / Metatranscriptome226Y

Sequences

Protein IDFamilyRBSSequence
Ga0126317_109045341F020088AGGAGGVEPQKQKESRFRIEQLEERIAPAIVLVNPAGNTPQGSGANNGVAIEAQNPAGHAPPGQN*
Ga0126317_109045342F004649AGGAGGVESKKESRFQIEQLEERIAPSNANFPPGQFPSGNPAQAPGQSNPNEVPATNPSNG*
Ga0126317_109045343F000818GAGGMETKEKEDVKSRFQIEQLEERIAPAIVAVNGGGNTPNGEANGVPRLNPAGHEPPGQN*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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