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 Ga0208089_1005963

Scaffold Ga0208089_1005963


Overview

Basic Information
Taxon OID3300020543 Open in IMG/M
Scaffold IDGa0208089_1005963 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 29JUN2012 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)2189
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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?
F000258Metagenome / Metatranscriptome1443Y
F009396Metagenome / Metatranscriptome318Y

Sequences

Protein IDFamilyRBSSequence
Ga0208089_10059631F009396N/AYDDVYVVYGYESDTLPLPAKINSLQKLFVKDILLIDNLSSPAVNNWGLAVNISETKFGLRVDRSSTLDNAVYIANGMVPPSIHDYSGIFQSGIPYKVQARFGWSSVPENVEQAAAELMKDYFSKDTMWRNKYVKNISTFDWDFEYTGDAYTGTGNAYADNLLADYVLTAKAEII
Ga0208089_10059634F000258GGAGGVTANYKLDAMLELRKYLWKELYTRNIFDEEDYWSDNLNENIVPIIPVQQAAEMNQFLSGKKHIVYDKIGMSYEDNWLICCEQILFTIYSTSVSDINEIRNYMTDEFRRMDESARDINKWTDLSNKFKFHTIWVADISPTAPSEELQGFFSAEVILE
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