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 Ga0208232_1006542

Scaffold Ga0208232_1006542


Overview

Basic Information
Taxon OID3300020527 Open in IMG/M
Scaffold IDGa0208232_1006542 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 24AUG2012 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)1896
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

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?
F025012Metagenome / Metatranscriptome203Y
F061496Metagenome131Y
F085149Metagenome / Metatranscriptome111Y

Sequences

Protein IDFamilyRBSSequence
Ga0208232_10065421F025012AGGAGMEQAQREYFVNRLNEIAREKVQAKAEALFGPTGRPEQPTWGMVFEGIASGEITLKEEKRDYTGPYLNPSDVVWPAMEAKVAELEAYRATVAREKQTAMDRC
Ga0208232_10065425F085149AGGAGMQTMYVLQAQGLGDNEYEFYNVGVYDSTANLERAKQKFTQEWAEGGLEDVVLNVEEYLVN
Ga0208232_10065426F061496AGGAMSRHHLVVYANYCRDTGFTLVEALKYVGDNLETDAVSDDVAYAYESTYEELMQFVETQR
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