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 Ga0208929_1051669

Scaffold Ga0208929_1051669


Overview

Basic Information
Taxon OID3300027227 Open in IMG/M
Scaffold IDGa0208929_1051669 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1548A-02 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)854
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
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 NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2319Long. (o)-123.8812Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000263Metagenome / Metatranscriptome1424Y
F001019Metagenome / Metatranscriptome804Y
F007468Metagenome / Metatranscriptome350Y
F033037Metagenome / Metatranscriptome178Y

Sequences

Protein IDFamilyRBSSequence
Ga0208929_10516691F033037GGAGMKPADKDKLNECLKILDSTDLGLSLVWLWTWSTINNIFEDETYKQNCTIDEMWD
Ga0208929_10516692F001019AGGMTYEPSLEILEMEYSCSPGGVDTFEVYDKTDIPLSIPIYETESLTDAVLYCYNLGKDFTVKTLAEWNERELAYEASR
Ga0208929_10516693F000263GGAMNAEDIGLPPHLQRLVNAGVNGLDIMHGELKNLMLIAEEQLAWAQAIEDETEEAMDSMARTEAEGRLDTLVELYKLTYDLSFAIGEKEGQKV
Ga0208929_10516694F007468N/ATLTTLTKSSKFIEYMKIHLISLNQDLEGDYNVQSKINIQGQIMATEHLLSVATDIMNDNLQGKGY
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