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 Ga0102816_1008886

Scaffold Ga0102816_1008886


Overview

Basic Information
Taxon OID3300008999 Open in IMG/M
Scaffold IDGa0102816_1008886 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Flood tide non-ETM metaG S.545
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2863
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2Long. (o)-123.94Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F039635Metagenome / Metatranscriptome163N
F043397Metagenome156N

Sequences

Protein IDFamilyRBSSequence
Ga0102816_10088865F039635AGGAMTEAQANKIKTRVEDFNILYAPITLRFQMFSTSETNWAVTITYNYTPEEWMTFVSLDSNYNHVNDRLSGFQFGIESVEAYQEEHGNLKFSHSDLPLG*
Ga0102816_10088866F043397AGGAGMPRYDVYIPFVASYEGEPYDEEFSAIVKADNEKDAIQKALDELSSEYVVKTLNSDEITVEEIPTFPSFDEWEEKYTALNNPHAREGEQGLGEIMFDTDGDEYQTVRGFDSSKIWTVRSTEYGLMLTAGFGVVDRFGYILSEQSFTEEDKDKAFIID*
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