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 Ga0209590_10034220

Scaffold Ga0209590_10034220


Overview

Basic Information
Taxon OID3300027882 Open in IMG/M
Scaffold IDGa0209590_10034220 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con1.8 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2715
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: California, Eel River Critical Zone Observatory
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004205Metagenome / Metatranscriptome448Y
F006201Metagenome / Metatranscriptome379Y
F078275Metagenome116N

Sequences

Protein IDFamilyRBSSequence
Ga0209590_100342201F004205GGAGGMEAHVTSQSQSFRLVEKMEQASIHHGQEIRADLPNVRVLALAGGEQGQVLFCNLGPIRVREILNGGDGRPLPTNVRLEGLEVVASGTYDLLNALVSSNGDLRLVVDDQTRVVPGASVVGAAVV
Ga0209590_100342202F006201AGGAGGMNPEEKVLLTTAFEALGPERVTRGLKATGHSWSDCFLALAISGEPDALAREMEKAHRKKHVVGALIGVPVQVVNEVVRLWDHDEQSFRALVAEWLELSRAAVPTAPAATAWA
Ga0209590_100342204F078275AGGAGGVAKLERHQDRDSWVSWAIEFVRRGLWPADLITVHGPPASPADHFWGDAEAWDESGTWCYTVAFQTPARHGWDRRGVRLWDAEHPGTHFPVVRRSAMSHAQRRWLRIARRLAGTQWQTSGR

 ⦗Top⦘



© 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.