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 Ga0208362_1000675

Scaffold Ga0208362_1000675


Overview

Basic Information
Taxon OID3300020558 Open in IMG/M
Scaffold IDGa0208362_1000675 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 13OCT2010 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)11200
Total Scaffold Genes38 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)32 (84.21%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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?
F004840Metagenome / Metatranscriptome421Y
F034575Metagenome / Metatranscriptome174N
F038479Metagenome / Metatranscriptome166Y

Sequences

Protein IDFamilyRBSSequence
Ga0208362_100067520F004840GAGGMDYEYLITCQYDSEAQPHWEQRYENEFGAWESFFRFTDWGLANEYSTVNLYTPTGKCYTKVFYRDGRVQVKA
Ga0208362_100067537F034575GGAGGMENNTTLDPYLMKQVEMGMDGADILHGHLKTLMYEAEQQLDLCIEAEEYSEEAMDSMARTEASGYLDALSEVYALTYAIAFAKEEVKNRKEILGE
Ga0208362_10006757F038479AGGAMNSLTLEQKIAKAAHMVANGQVVSFRGASADTYIKVERMANRIKQEREFPQCPCGQCD
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