NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0308197_10026445

Scaffold Ga0308197_10026445


Overview

Basic Information
Taxon OID3300031093 Open in IMG/M
Scaffold IDGa0308197_10026445 Open in IMG/M
Source Dataset NameMetatranscriptome of soil microbial communities from the East River watershed near Crested Butte, Colorado, United States - ER_RNA_198 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1323
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil Microbial Communities From The East River Watershed Near Crested Butte, Colorado, United States

Source Dataset Sampling Location
Location NameUSA: Colorado
CoordinatesLat. (o)38.9206Long. (o)-106.9489Alt. (m)Depth (m)20
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000805Metagenome / Metatranscriptome883Y
F001079Metagenome / Metatranscriptome785Y
F001935Metagenome / Metatranscriptome615Y
F012223Metagenome / Metatranscriptome282Y

Sequences

Protein IDFamilyRBSSequence
Ga0308197_100264451F012223N/AAFVAAWKAGHFHELDRLGSLPLLVEEEDYYTPEWALDEEEWIDGDA
Ga0308197_100264452F000805AGGAGGMGMPSGDSPEHARQYYHYLQGHQETMQGAATWHVHWVDLAWLWGFFGALVLAILLWVWQYRSTRQKANLYPVDSFGGYTTELAGPATFFFLLLTIGLTAFAVVVIVGHLVWGQKF
Ga0308197_100264453F001079AGAAGMEATLPASSPLPYVAWSSSSMAVVPAADWPLVFGSMQALKGHVQEYPGCQKLEAFVEPAGPDYRIHCYTVWDTPEQLEAFLERGYTFERMLADVAGIEAERPRMMEKIF
Ga0308197_100264455F001935AGGAGGVYLKHLSSLQFLTYASFFAVVVAALFKFVPGRSPPLREEPYPDDELHAHDPKVAKYFLAGGLFLVLGSAHMAVKNLPWVAEYLARTGYAGHLVRDLSNTHVMIVGGGTLL
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.