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 Ga0208082_1025243

Scaffold Ga0208082_1025243


Overview

Basic Information
Taxon OID3300020563 Open in IMG/M
Scaffold IDGa0208082_1025243 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 09JUN2009 deep hole epilimnion ns (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1180
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
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?
F000311Metagenome / Metatranscriptome1326Y
F001043Metagenome / Metatranscriptome794Y
F003422Metagenome / Metatranscriptome487Y

Sequences

Protein IDFamilyRBSSequence
Ga0208082_10252432F001043AGGAGVSDYKEGFQDGYKFAREELMEKLREIDINDIDSWLLNQLADMIEGNDL
Ga0208082_10252433F000311GGAGMYFELTAPSKVAFARAIWEAEIIGLDPEKMDALTFNIGTGSIEKVTNLCEKYNLTEDYVSEFEPTGYTRS
Ga0208082_10252434F003422N/AVSGTCYNTHMTNELVSSKYTFVCDPNECDSLIELTSSDGFGFPSGVTELTCPCGRKTTLVSVEHATIPYTDSPLPTKEETMEETTVGTINDLLTPYQPDMLVTYKKISGYSDTEFLTDKVRNIEWELHNARTNSKIASALTNKIALVKDIIVEAYSDSDDQETLRSIAEALEIELTRDVEWSATIEVSGVIQLDLLADSDTDIESEIYDNLYVESQNGNIEITDTEVCNVREN
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