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 Ga0208926_1000038

Scaffold Ga0208926_1000038


Overview

Basic Information
Taxon OID3300027205 Open in IMG/M
Scaffold IDGa0208926_1000038 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1449B-3 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)28571
Total Scaffold Genes46 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (4.35%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families3

Taxonomy
All Organisms → Viruses(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2327Long. (o)-123.9168Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F017298Metagenome / Metatranscriptome241Y
F061550Metagenome131Y
F075858Metagenome118N

Sequences

Protein IDFamilyRBSSequence
Ga0208926_100003816F075858N/AMLIDDYNLRACLIEALKTRTRNQVVKEIKGRGEKFHQYNIDRFLQGKDVSLETAKKLDKYIYRLKLQ
Ga0208926_100003823F061550N/AMEIKLLSATAILRKTLLKLKISREEIEEKNGHRTDLLNSMLETENELSEVLTTFLVLEKQARIFSSSSNNLEQLNLELKFRIKELENEIKINNF
Ga0208926_100003827F017298N/AMKQLLKSQIANTENEFTQTTFSLKRKMNWWREQSVEGDKGGSFNLNLYLDYLSQQEFNEIPNSNETL

 ⦗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.