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 Ga0210408_10001134

Scaffold Ga0210408_10001134


Overview

Basic Information
Taxon OID3300021178 Open in IMG/M
Scaffold IDGa0210408_10001134 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-H-4-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)29209
Total Scaffold Genes32 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)26 (81.25%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States

Source Dataset Sampling Location
Location NameUSA: Massachusetts
CoordinatesLat. (o)42.481016Long. (o)-72.178343Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000386Metagenome / Metatranscriptome1203Y
F002541Metagenome / Metatranscriptome550N
F079693Metagenome / Metatranscriptome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0210408_1000113419F000386GAGMAAMTDTAPYMNLHVPPDEMVKYIQALMTLPHGEIAASSAMTLAQRHWGGDTPLARAALLRWGALNLAFQDKRLDTWTVTRERDRIQVPAALVAAAGIAPLVIDNERAVFDIPALLDATLEFQPPAGQA
Ga0210408_100011342F002541GGAVERYRNLADSLADGESRRRTSLGITRAGLAKRCVTWLKLLLTPPPNGPSTAPMREFVDALGLFPALFDSEPSARSRRARLTWLLTHDRRLDASTREAATALIEACEHLGVLLWPDAETA
Ga0210408_1000113425F079693GAGVQRNALAGQALDRGHATAATLGAYAALIVLGAMPDAARSDWIFGAEAGLRHDNNVGNAEYRDDIVADTILGARLSMFQLFPLDESYSVTVGGDLNGESYHRLTGLSNVSLEGVFMLKKKWGLGAFAPWARAGVSVARSGYDDSYRNAWVYRATLASGRRIDQRWNLWAEYAYERRAARTAVQEVPGLSGDAFSQNSHNVAANLEYSLNESTFLVLGLLARHGDVVSTTSPGLGVYTSSLALAEDPAFGPDEYAYRLTGTTYGFRVGMNYSPTPHNLLGWGFTRLETHAAGGNNYTKSMPQITWDYQF
 ⦗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.