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_1008583

Scaffold Ga0208232_1008583


Overview

Basic Information
Taxon OID3300020527 Open in IMG/M
Scaffold IDGa0208232_1008583 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)1616
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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?
F004978Metagenome / Metatranscriptome416Y
F006112Metagenome / Metatranscriptome381Y
F006698Metagenome / Metatranscriptome366Y
F043926Metagenome155Y

Sequences

Protein IDFamilyRBSSequence
Ga0208232_10085832F006112AGGAGMKQDYTMYIYKADKRTKTGERLFSTTVWQDRTAEAMRNECNGLYWLYPATQGWRFEYFPTMKTVTNLMSGAEIQIAHDTPRSCDPSSELYWSM
Ga0208232_10085833F043926GGAGMIKWECQMFYKDKLYSGHYWGDELSLARARRKVAELQRMHPPMRFVLTDWQKGSIISIDKHTKELA
Ga0208232_10085834F006698AGGAMTRHYEELAVYEREGYEIIVDKTWEDISVADCFDDTQFDIAEINHNIEHGHLDWFVLRVRVLVEGLELDSEHLGGMLYEDARECLTDGTAEDLIEQSLANAKQQVYRLYRKFQDLSWELDAAGVDRSTV
Ga0208232_10085835F004978AGGAGMITADTIKVLATYSPQYLTKAAQLAGWKGANFTACKFLGITNGGQFCYQAVFPVKGGTDSTKVFLSYDHDEDRVIADIQLTELS
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