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 Ga0334979_0004242

Scaffold Ga0334979_0004242


Overview

Basic Information
Taxon OID3300033996 Open in IMG/M
Scaffold IDGa0334979_0004242 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME20Jul2016-rr0004
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10187
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (35.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

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?
F028149Metagenome / Metatranscriptome192N
F085631Metagenome / Metatranscriptome111Y

Sequences

Protein IDFamilyRBSSequence
Ga0334979_0004242_4396_6009F028149AGGAGMATGNVISCKQFASFLVSQEPVYDKEVLKDVRPFDGLIGYYNTGSFDAYSGTTHRFDRFNSVFPNVTGAWENSTGDSCVGQPCDPSENKIGWGYTRSTYSLEKQAWGSDILCFDQIMTKTKAKEHFRQIIDDVLRPATNWITTYYLQRKAMELSGYTASGISGGAFACKAGLPAISFSWVGTGYTTLRVLDSASAAVTAASLGLLTPDILRSRVTRQYFLGAIQAGKEGYDSLQLHTDKETFRYLAKSNSQLTDSWRFGEFAPAAKEFYKYGFMGFVGDFMVKVLQFPLRFNATATAGNYTLVLPYKNVAASEGIRSEFNGDYDRAQYQISYINNPRALRVLPFRPEAVNPNMPFMVRDYGGRWKFATNDLGADCSGRPIDNSRGNKGKFIADFQLAVKPEHPEWLEAIFHKVNGACPVIIAGCAEDPGNPAQDYNSANGVCNPTLQFTAVANDAGNFVLGTTGILCDGNIVTNAGISEATVAALVSSLQTVWDAEFGSAAGTWSVVSGNVIQLASSAFGTTTEVVPCTNVTLEFSI
Ga0334979_0004242_6220_6393F085631GAGVSYRLPIEVAQMLEDEAIRSRRTKTAVLIIAIEDHVLRGEDDLPEVIKKPVDTRKSR
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