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 Ga0210298_1283895

Scaffold Ga0210298_1283895


Overview

Basic Information
Taxon OID3300021328 Open in IMG/M
Scaffold IDGa0210298_1283895 Open in IMG/M
Source Dataset NameMetatranscriptome of estuarine water microbial communities from the Columbia River estuary, Oregon, United States ? R877 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1941
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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 NameUSA: Oregon
CoordinatesLat. (o)46.217Long. (o)-123.781Alt. (m)Depth (m)1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001733Metagenome / Metatranscriptome644Y
F012219Metagenome / Metatranscriptome282Y
F039641Metagenome / Metatranscriptome163N
F050378Metagenome / Metatranscriptome145N

Sequences

Protein IDFamilyRBSSequence
Ga0210298_12838951F012219AGGTGGMNLQNFRIEKEPAPSTDWRVFGDITDDAGNILGTFGQDGTSVNLWWVTQDELFQSQIVRQFALIMAQQIVSGDAE
Ga0210298_12838952F001733GGAGGMNSISIKRLVVVVIVAFTAAFTSVFGDGIRTAEAHDISELGAVLALYGSKAVAAGVSAALSSVLAFLTMPFKGTDMNALKVGK
Ga0210298_12838953F050378GAGMWVQIGIQAFITTVSIGAAWVALQVRLTRLETQVAHIISTLDGQQQEVRRIEQRLGKLENKVSALEAIINR
Ga0210298_12838954F039641N/AMIPAAYSNALKNAIQAYSYADRVAIWRTVNQADGIGGVSQHWIQVAEIRGTISNTGDTEGVVGGMIEQSGTWTLTCSPDIEVKADDRIYTSGNPQNLAPYYECIGSDYGHTNAVSQTIGLRARTNG
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