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 Ga0209288_10030400

Scaffold Ga0209288_10030400


Overview

Basic Information
Taxon OID3300027762 Open in IMG/M
Scaffold IDGa0209288_10030400 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities from Prairie Pothole Lake near Jamestown, North Dakota, USA - PPLs Lake P8 Core (1) Depth 1-3cm September2015 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1575
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Sediment → Unclassified → Freshwater Sediment → Freshwater Sediment Microbial Communities From Cottonwood Lakes Research Site Near Jamestown, North Dakota, Usa

Source Dataset Sampling Location
Location Namenear Jamestown, North Dakota
CoordinatesLat. (o)47.0991Long. (o)-99.1044Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F013514Metagenome / Metatranscriptome270Y
F024768Metagenome / Metatranscriptome204Y
F057309Metagenome / Metatranscriptome136Y

Sequences

Protein IDFamilyRBSSequence
Ga0209288_100304002F057309GGAMMTNPLIDKYFELYPEKKEKPKLPRIEDYESEETFADKLKKLRDTSTIPVSKIKSYDTDDLKVSFQQIAEKVKNDEAQVSSMSMEMDIMYGTKITFEVYVYGP
Ga0209288_100304003F013514GGAMEQKSPLRFMFMDLEELQKYLDDNNITLEEYMRANMITDEERKYFDKIWMDAIYKNFKDD
Ga0209288_100304005F024768N/AMDYETEIINGHTAVVRHFFKPHEIKVGSRWIGSSGSIVVVEGINQYGSTGTWYEVVYSWEENGVKKTHDKDQFAFQCRYCLIIEEN
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