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 Ga0208802_1000833

Scaffold Ga0208802_1000833


Overview

Basic Information
Taxon OID3300027210 Open in IMG/M
Scaffold IDGa0208802_1000833 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1449C-3 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4829
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (42.86%)
Novel Protein Genes1 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (100.00%)
Associated Families1

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → Caudovirales → Siphoviridae → unclassified Siphoviridae → Synechococcus phage S-CBS4(Source: IMG/M)

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)46.2327Long. (o)-123.9168Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F021068Metagenome / Metatranscriptome220Y

Sequences

Protein IDFamilyRBSSequence
Ga0208802_10008335F021068GAGGMQPSDCTIYAVCIPGERVRYEAQSCIVPIMGGAHALIDEEREDLRSQGYVFDDENAFLSQLNNRWGELSCVSWIILNAKQNNIGNAQYRRNWLEPKDQWYDSSTLYFPEPALFNCTLEQQFYGGHFDFDAPAMTRDIADSGRWIFSRKEIDCIWSQNSFIGCNMARGSSADYKQFMSALLAALEPIWKKHKEQFLCIEGYDKRALAFIAERLITGMVLYREKLFPSMNIATAPIGFVP
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