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 Ga0209296_1000420

Scaffold Ga0209296_1000420


Overview

Basic Information
Taxon OID3300027759 Open in IMG/M
Scaffold IDGa0209296_1000420 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Simoncouche, Canada to study carbon cycling - S_130206_EF_MetaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)36590
Total Scaffold Genes52 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)44 (84.62%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater Lake → Freshwater Microbial Communities From Northern Lakes Of Canada To Study Carbon Cycling

Source Dataset Sampling Location
Location NameLake Simoncouche, Canada
CoordinatesLat. (o)48.2311Long. (o)-71.2508Alt. (m)Depth (m)1
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F019099Metagenome231Y
F039032Metagenome / Metatranscriptome164N
F057197Metagenome / Metatranscriptome136Y
F073241Metagenome120N

Sequences

Protein IDFamilyRBSSequence
Ga0209296_100042027F073241GAGGMNLIHIMKDDNGDFEPLDLTPVFYKGNIMCVPHWRIKNTWVAPGGKTYTTTELLALGAKVSLSLLWPRGWVTKMLGRHNPAMLSQESLTNLIKGKANAL
Ga0209296_100042032F019099AGGAGMIINGRIIKDWDKSQISTGYQRPPQFQIITWDMGRVQSWLLGKQPLARTLLEKVIR
Ga0209296_100042034F057197GAGGMTDFAAWRYENLVQFAKEATERMTLLNAEVDALNADLKAAINAYRDLLRRDTPVLLEATHPTEAQKTGE
Ga0209296_100042041F039032N/AMMVTLSEVDHKIDAHVDVCAIRYEGIEKETRGIHARIKRLEQILITGGGAIIMMLLTMLMKGH
 ⦗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.