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 Ga0070744_10002231

Scaffold Ga0070744_10002231


Overview

Basic Information
Taxon OID3300006484 Open in IMG/M
Scaffold IDGa0070744_10002231 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.535
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5870
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (78.57%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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?
F001125Metagenome / Metatranscriptome769Y
F004051Metagenome / Metatranscriptome455Y
F017829Metagenome / Metatranscriptome238Y
F099312Metagenome103Y

Sequences

Protein IDFamilyRBSSequence
Ga0070744_100022311F099312AGGTGGVSSFLENENEMLIDAIYSEIGEQLVEDWVNSNLDEGQLYADWCV
Ga0070744_1000223110F017829AGGMANRFRVEIYDANKANDITIYSDQGVDKEYLTELVFSNIRNFSGKINAYVFDNVKKKKTTAMFLDESTVEFNKNLISNAKKVEVGI*
Ga0070744_1000223112F004051GAGGMTIDNHLYQVGDLFTTLKSKKTGVIKEIHPQASGSVRVLLELPSKETRWTSVSAKTLLG*
Ga0070744_100022313F001125AGGCGGMGDRANFGFRDSKENIVFLYGHWAGHRMLEQLADAVAAAEPRWQDESYATRIAISNLIKDEWASETGWGIYVNQLGDNEHKVPIIDWKNKTFTLMEEDLETVVFSTSLEAFVAKYSSQLSMV*
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