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 Ga0068912_10138271

Scaffold Ga0068912_10138271


Overview

Basic Information
Taxon OID3300005506 Open in IMG/M
Scaffold IDGa0068912_10138271 Open in IMG/M
Source Dataset NameSoil microbial communities from Colorado Plateau, USA - Soil Crust after dry out 3A (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1054
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 → Terrestrial → Soil → Sand → Desert → Soil → Soil Microbial Communities From Four Geographically Distinct Crusts In The Colorado Plateau And Sonoran Desert

Source Dataset Sampling Location
Location NameUSA: Colorado Plateau
CoordinatesLat. (o)38.42Long. (o)-109.4099Alt. (m)Depth (m)
Location on Map
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Associated Families

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

Sequences

Protein IDFamilyRBSSequence
Ga0068912_101382711F004649GGAGMDSHKAETKSKFRIEKLEERIAPSAANFPPGQFPSGNPAQAPGRSNPNEVPSSK*
Ga0068912_101382712F020088AGGAGMNSRNEEKKSKFRIETLEERIAPAIVSVNPAGNQPQGDAQGKAIEAQNPAGMAPPGQNK*
Ga0068912_101382713F000818AGGAGMETRKAESKSKFRIEALEERIAPAIVISQVNGGGNTPKGNANGVPEVALNPAGMKPPGQQ
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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