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 Ga0102874_1000196

Scaffold Ga0102874_1000196


Overview

Basic Information
Taxon OID3300007546 Open in IMG/M
Scaffold IDGa0102874_1000196 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1547A-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)24051
Total Scaffold Genes46 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)36 (78.26%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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)46.2314Long. (o)-123.8828Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000376Metagenome / Metatranscriptome1216Y
F000671Metagenome / Metatranscriptome945Y
F066776Metagenome / Metatranscriptome126Y

Sequences

Protein IDFamilyRBSSequence
Ga0102874_100019620F000376AGGAMNEYQEMAKQCKCCTKHVPMPTTMKTYDGIIVCPTTLQNIIEYKKIWESYGQRPMGGIRKHFSEYVQQIVENSIDKNQDGSIQYN*
Ga0102874_100019637F066776GGAGVLNLTLDGVELFIKRSQTKNQESFWKNYDLIIWKKDSGGYTDITGMYRKDTWGKTKKISVNHEGVWKLPKKYVKYFK*
Ga0102874_100019641F000671GAGGMSEKILCYCCNKTKNSLSAKKSTLLNINLLLCETCIDSKLEPRWVVILAGRQMGHEFVKEHVSKKRYPGDEILASELLI*
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