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 Ga0102907_1071848

Scaffold Ga0102907_1071848


Overview

Basic Information
Taxon OID3300007962 Open in IMG/M
Scaffold IDGa0102907_1071848 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1556B-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)917
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
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)46.2022Long. (o)-123.941Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010198Metagenome / Metatranscriptome307Y
F097118Metagenome104N

Sequences

Protein IDFamilyRBSSequence
Ga0102907_10718482F010198AGGMRIANKDGFRFGERAYLIGHEFGLICVSYGNSEQEALDNAVDSGYMDSERMTDADHAEYDANGWYDSFIYAGNASEPFWSEYLWIKPANERKKEAA*
Ga0102907_10718483F097118AGGCGGMIKFPSGLKFGKGEDSLVDSLFTGSTTNDGWYTVTGRKYKTMRFFTGNGKPLFYIVSNKHGITSGNLTSNANKFYYMAGTCSLTSKKLGLDRLDYTAEKTLITDIIEAV*
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