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 Ga0244777_10073504

Scaffold Ga0244777_10073504


Overview

Basic Information
Taxon OID3300024343 Open in IMG/M
Scaffold IDGa0244777_10073504 Open in IMG/M
Source Dataset NameCombined assembly of estuarine microbial communities from Columbia River, Washington, USA >3um size fraction
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2197
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F025150Metagenome / Metatranscriptome203Y
F084734Metagenome / Metatranscriptome112Y

Sequences

Protein IDFamilyRBSSequence
Ga0244777_100735041F025150GGAGMINVSTEGKSLPEYDTFIDNCIMALFPSDAQYDINICFKKYVDKDGSHAGFCMGDTDDCAIDIATHWMFEDGEEVAYQPHEIAGSIAHELVHAKQFYRDQINMTDHVWKHNHETINCEGLEYANTPWEVEAYAYEHILTDLLWGNV
Ga0244777_100735043F084734N/AMPVFRYNTFMKKYKRKPWSEKERKTLSQFYFHASIDEMCGLLPERSEQAIRNQVAYLRKRGYRFI
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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