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 Ga0102891_1089176

Scaffold Ga0102891_1089176


Overview

Basic Information
Taxon OID3300008950 Open in IMG/M
Scaffold IDGa0102891_1089176 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1552A-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)936
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
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)46.1869Long. (o)-123.8842Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000263Metagenome / Metatranscriptome1424Y
F007468Metagenome / Metatranscriptome350Y
F025737Metagenome / Metatranscriptome200Y

Sequences

Protein IDFamilyRBSSequence
Ga0102891_10891761F007468N/ALLVSCKVCGRRVILTTQTKSSKFIEYMKIHLISLNQDLEGDYNVQSKINIQGQIMATEHLLSVATDIMNDNLQGKGY*
Ga0102891_10891762F000263GGAMNAEDIGLPPHLQRLVNAGVNGLDIMHGELKNLMLIAEEQLAWAQAIEDETEEAMDSMARTEAEGRLDTLVELYKLTYDLSFAIGEKEGQKV*
Ga0102891_10891764F025737GGAGMKPADKDKLNECLKILDTTDLGLSLVWLWTWSTINNIFEDETYKQNCTLDEMWDHLCEAVEAGQGFSLE
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