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 Ga0255223_1060520

Scaffold Ga0255223_1060520


Overview

Basic Information
Taxon OID3300024480 Open in IMG/M
Scaffold IDGa0255223_1060520 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from Columbia River, Oregon, United States - Colum_Cont_RepC_0h (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)648
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Nitrosomonadales → Methylophilaceae → unclassified Methylophilaceae → Methylophilaceae bacterium(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?
F000671Metagenome / Metatranscriptome945Y
F011938Metagenome / Metatranscriptome285Y
F013891Metagenome / Metatranscriptome267Y

Sequences

Protein IDFamilyRBSSequence
Ga0255223_10605201F000671GAGGMEKILCYSCNKSKNKLDVRKSSLLPINLLICEACYSAKLEPRWVIILAGRQSGSDSVKEFIIKRRYIGNEISAS
Ga0255223_10605202F011938GAGMESDASWRENPVKEYYDTTHIVFIHAEQCHGTVEKLGAWASIVRYNKDGIEHNELMENEDFTIIDEIVFKHIEESE
Ga0255223_10605203F013891N/AVFYTEEMKKKVHQIKKPSLLLMDVVMYPDFLALRLYEDNFLQFEGIKKEMVIDYVKKVKQLIESYGVRCELEGKPSERVL
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