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 Ga0334996_0006380

Scaffold Ga0334996_0006380


Overview

Basic Information
Taxon OID3300033994 Open in IMG/M
Scaffold IDGa0334996_0006380 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME25Jul2006D11-rr0046
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7991
Total Scaffold Genes23 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (65.22%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.0995Long. (o)-89.4045Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000808Metagenome / Metatranscriptome882Y
F001507Metagenome / Metatranscriptome681Y
F003393Metagenome / Metatranscriptome489Y
F005348Metagenome / Metatranscriptome403Y
F006844Metagenome / Metatranscriptome363Y

Sequences

Protein IDFamilyRBSSequence
Ga0334996_0006380_1170_1379F000808AGGAGMEYNYSLTTSYDGELVHTLRVSDMLEAVNAWTKCVDFGDAKEYATYNLSDPTGKMYTKTFYTNGNVVIK
Ga0334996_0006380_1668_1907F003393GAGGMIDLENDDTIQIVDYVKVDILTSGQLEIEDCILIGDEVVSIVDIVSLPDGYTLEIVNDFGEREIIEVGEYDQFDLMMLQ
Ga0334996_0006380_172_306F005348N/AMAFDCDECNGQGLIFWGNDLDYDVEKCECENFALGTLFTTKEND
Ga0334996_0006380_5747_5908F001507N/AMTTTYKPYTIDELVTTIYEDNLSHFEFMEAMNAGDCDCNLHTTLNTIVKYWGE
Ga0334996_0006380_7652_7807F006844GAGMATWDVEIIFEPTGDYMNFVYETDNQDEQDIYREIENQLSIVPVLTEKDPE
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