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 JGI12421J11937_10034979

Scaffold JGI12421J11937_10034979


Overview

Basic Information
Taxon OID3300000756 Open in IMG/M
Scaffold IDJGI12421J11937_10034979 Open in IMG/M
Source Dataset NameFreshwater microbial communities from dead zone in Lake Erie, Canada - CCB hypolimnion July 2011
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1764
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (16.67%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Hypolimnion → Freshwater And Sediment → Freshwater And Sediment Microbial Communities From A Dead Zone In Lake Erie, Usa

Source Dataset Sampling Location
Location NameLake Erie, Canada
CoordinatesLat. (o)41.77Long. (o)-81.73Alt. (m)Depth (m)20
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004723Metagenome / Metatranscriptome426Y
F015867Metagenome / Metatranscriptome251N
F018713Metagenome233N
F047570Metagenome / Metatranscriptome149N

Sequences

Protein IDFamilyRBSSequence
JGI12421J11937_100349792F015867GAGMKXKVTYYDYDSDSYLTKELYWMASYRGSFDFVPVDDGPKENWKGFSISGSGVNVFYNDKGMNITVDGFQEMKSGGYGKTTTVIQSVN*
JGI12421J11937_100349793F018713N/AMTPDPNLWAEIPQEVKDAAILLGNYFKKQGIDSWTLYDVSSRQNFNGAYNQGLDTAISLVSEGSDMETIICGLENSKKQFPNECGDGIDYTKXF*
JGI12421J11937_100349795F047570N/AMKMTDENKLKIVTLSHNIKALCYILDKKTFSEHCXTSGXFXXIDXLFDLAKKLKEMNKEE
JGI12421J11937_100349796F004723N/AKRYMKKGDKFIHTDIVGRKYEVTYTGTRRTVKDCEFEFFVDDKGDSCFFTDTEVSKMKKVGYTHDENCL*
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