NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0208926_1000043

Scaffold Ga0208926_1000043


Overview

Basic Information
Taxon OID3300027205 Open in IMG/M
Scaffold IDGa0208926_1000043 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)25477
Total Scaffold Genes31 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (6.45%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families2

Taxonomy
Not Available(Source: )

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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004155Metagenome450Y
F026566Metagenome197Y

Sequences

Protein IDFamilyRBSSequence
Ga0208926_100004310F026566N/AMILKQKMLFSKEECESIISYNNTHITNWVMDDRKYNSQPINYSLDTKWLFDKLKEFVEENTDIKIKKIKETIHFHKFTKDDWFGKHNDIRDNRLYAVGVLLNDNFLGGDFKLHNQNEIILDKVIGNAYIFDVRIDHEITPILDGERFSLLWFLQNEHIEIKTNKLI
Ga0208926_100004325F004155N/AMKSEILLTLIKEVVKNEVKLQVKEELVKLIKSGAVTLNSQKKPSTPSLREMTEVTPTPVKRQQPVQQTQRPQKEFSKDPMINEILNMTQPFSSEQRKEGAQAVGSVLDMIKPELRVDESEWETMDFREVNVPSNVPNFESTGDGLQDATIKALTRDYRELVKRF
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