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 Ga0208487_1000124

Scaffold Ga0208487_1000124


Overview

Basic Information
Taxon OID3300020531 Open in IMG/M
Scaffold IDGa0208487_1000124 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 21SEP2012 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)18924
Total Scaffold Genes50 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)42 (84.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

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?
F008812Metagenome / Metatranscriptome327Y
F012108Metagenome / Metatranscriptome283Y
F057320Metagenome / Metatranscriptome136Y

Sequences

Protein IDFamilyRBSSequence
Ga0208487_100012429F008812GAGGMIQWIGIVVTILGLAYTGVKDYQKGDIKFPKMPQKQVLTKVVYPIQYCLMAYDPNIDRIFYLHENGIWYDYAPQQRRYSTTPQPYQAQGATAVAGSYGSQGTPAYRYGQSPQASANPIR
Ga0208487_100012433F057320GGAMSYVGLYDDAGSKNAFYIIKDKKIGRKRVGFKEFENKQEAEFAHRVQKYLAEFNLAPMVYGDVGMIRRHDGELTAHGYLTEVARTMPECHDEDCDGECFQSECKNGTTISELVYDLGEHGLEYNDSHKGNFGYVRRKGSWVPVVIDLGIESFTDWDEDIYGKFDYDYDAYDGGYGECNCVHCQKFREKQ
Ga0208487_100012439F012108GGAMIKVELSVRESLNMIANGCSLDMFEKIVCSLEVALGVNQRRCVTITAGMNTDNRIPCIKAIRLHTGWGLKEAKDWTDFLVGGWKYDKWYPAPAGTKQSMMLKTPEAAEALLRDLAGLGCEGYLS
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