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 Ga0335000_0128628

Scaffold Ga0335000_0128628


Overview

Basic Information
Taxon OID3300034063 Open in IMG/M
Scaffold IDGa0335000_0128628 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME02Oct2008D10-rr0053
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1702
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (50.00%)
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 → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.0995Long. (o)-89.4045Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F019433Metagenome229Y
F023522Metagenome209Y
F024537Metagenome / Metatranscriptome205Y

Sequences

Protein IDFamilyRBSSequence
Ga0335000_0128628_1433_1684F019433N/AMVTDKLKISSLNEILATRVRTVYPYRVNFNNITRNQIEEMSSWCINNCKELWREEHVHALYFQFTDDHDAMMFMLKFGGRGNV
Ga0335000_0128628_2_241F023522AGGMIDPNPTVTILRAQKAEEHLKVDERLMQLLDTYHAIVLKDDDFSEKLTWCLENCQSKFRDLSDPNGRAWYFQNEQDAMLF
Ga0335000_0128628_787_1044F024537GAGGMTLEEEMLNKAGIEMAREIDREVLWGMLKDIGWRRVMLDRFTDNNHAVDITHWLESNCKNPFERSGADFIFESTVDAVNFTLRWK
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