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 Ga0007760_11281490

Scaffold Ga0007760_11281490


Overview

Basic Information
Taxon OID3300004793 Open in IMG/M
Scaffold IDGa0007760_11281490 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Fa13.BD.MM110.SN (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1560
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → Freshwater Lake → Freshwater Lake Microbial Communities From The Great Lakes, Usa, Analyzing Microbial Food Webs And Carbon Cycling

Source Dataset Sampling Location
Location NameLake Michigan, USA
CoordinatesLat. (o)43.1998Long. (o)-86.5698Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F035768Metagenome / Metatranscriptome171Y
F061859Metagenome / Metatranscriptome131Y
F062765Metagenome / Metatranscriptome130Y

Sequences

Protein IDFamilyRBSSequence
Ga0007760_112814902F062765GGAMEWYRARGLTQKQTKIATKDTMFYNTGDTYTTEDITTNYSCGRIDIRGIPNEPYGDELGVPPMLSTDWHALGDWLWDVQTISVWTLPDLVTAYEQHNPKITWDTHDR*
Ga0007760_112814905F035768AGGAMKITIEDRLLAAYTAQRLRLRDREDEDYRARVEAKQFEKIIVDRVRRNLRLDLDKGTNVDLDV*
Ga0007760_112814907F061859N/AVVLEYQKLAKPPYQEPVKPDMAEQWKAATRADTLDNIDSWNAKVGDKIWHKEAAAELEPTPINPQATWPFPTGRQP*
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