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 Ga0256299_1006143

Scaffold Ga0256299_1006143


Overview

Basic Information
Taxon OID3300024533 Open in IMG/M
Scaffold IDGa0256299_1006143 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from Columbia River, Oregon, United States - Colum_Miss_RepC_8h (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2040
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes1 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (100.00%)
Associated Families1

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)46.1812Long. (o)-123.1834Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001360Metagenome / Metatranscriptome714Y

Sequences

Protein IDFamilyRBSSequence
Ga0256299_10061432F001360AGGAGMSLAKFRKVGTKTGSGRFVVSEGIAPAAYLLPHPGLPTWYLDSEDDRFEIVIPKGTILSVVADSNGDARVVPANGSASSVTWGDNMPTSWDPLDGATPSYSSGATDTIAVGARSIPVGVAQYDLYRPFDKGTSQGAGFITHGYVEYPMVDTINANVTVGSVVRSDHMGRPVLAAAADFYNSSAVYSYLQVGKVVEVEKFATNFDDGLLSYMQLPSDPGALKTVFEITRSGSFSGKLGIRSNLDVHNVIGAFRVNLTL
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