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 Ga0070743_10012584

Scaffold Ga0070743_10012584


Overview

Basic Information
Taxon OID3300005941 Open in IMG/M
Scaffold IDGa0070743_10012584 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.697
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2976
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (100.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002071Metagenome / Metatranscriptome596Y
F006744Metagenome / Metatranscriptome365Y
F011299Metagenome / Metatranscriptome292Y
F038205Metagenome / Metatranscriptome166Y
F038643Metagenome / Metatranscriptome165Y

Sequences

Protein IDFamilyRBSSequence
Ga0070743_1001258410F006744AGGMNLEEFKAHVLATRQASKSEALSVLSATISTTERKEN*
Ga0070743_100125842F002071AGGAGMEIGQTYTTTASGITGIIKAVDNHPSGVNRILLDVNGTERWTSAYAE*
Ga0070743_100125845F038643AGGMNTNNWAEFPFSVDGVNFVSKLDKEGSMYPQVNNMPVSIFNQMNQSAVRELIGKVSLMSQSEIQDELDRVNEGATQALICLA*
Ga0070743_100125847F011299AGGMTMTRKHFEAIAEILKYNSNKTHPAVFSKMVLDFSELCAKENPNFNVTKFHEASGYQVPSFNSRG*
Ga0070743_100125849F038205AGGAMSDLKEIIAVACDECGGAGFLFWGDENNYDVEACECALDDWNI*
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