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 Ga0208091_1003186

Scaffold Ga0208091_1003186


Overview

Basic Information
Taxon OID3300020506 Open in IMG/M
Scaffold IDGa0208091_1003186 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 26OCT2012 deep hole epilimnion (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2372
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006885Metagenome / Metatranscriptome362Y
F018928Metagenome / Metatranscriptome232Y
F028423Metagenome / Metatranscriptome191Y

Sequences

Protein IDFamilyRBSSequence
Ga0208091_10031865F028423AGTAGGMENLEKNELIQLVRFYKQKLSDVELESLKLQLEVNKLNSMVLSLSQEPVKKTK
Ga0208091_10031866F006885N/AMKYLLIIGLTLLSYWSIIKISNKRRMIFLNKNKYRQSSIFEMVKDVVPKQRFDKPKVITQSQRHIQKNMLRVVIADGSAYWILNNVFYTANAINGRVDEETIKPLDIENMPTKELDKMLSILDDLKQGVGPNDSGSSGNKRV
Ga0208091_10031868F018928AGGAGMIIRSLNTMEKIINKNKNLLWRGWDVIDLKESDVAKTSPMGIRVKDKWYLHRIYKPGRNGWDIPNKYKD
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