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 Ga0102854_1001397

Scaffold Ga0102854_1001397


Overview

Basic Information
Taxon OID3300009058 Open in IMG/M
Scaffold IDGa0102854_1001397 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1370A-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7231
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (14.29%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
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)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F023218Metagenome / Metatranscriptome211Y
F057374Metagenome / Metatranscriptome136N

Sequences

Protein IDFamilyRBSSequence
Ga0102854_10013971F057374N/ATYWIMNKVFLFILLLTSSLLSSQNFVGENFRLSADSGNVVITFEDQNSDGTYIGGVLTKSFGKLTITKKEFQTKFIPNLKKISGKKDYEIVEGSYRLDKYSFDTESVFIQVGNKIGSITTKEIKKLRKL*
Ga0102854_10013974F023218N/AMIFPSNKRKARYINENLYIVHAVISIDRVKNPTMIKEWLGVDTTFKVQREGTYWFCELVEEPEWEEIN*

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