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 Ga0255236_1007088

Scaffold Ga0255236_1007088


Overview

Basic Information
Taxon OID3300024563 Open in IMG/M
Scaffold IDGa0255236_1007088 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from Columbia River, Oregon, United States - Colum_Cont_RepB_8d (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2524
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (20.00%)
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 → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)46.1812Long. (o)-123.1834Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F020529Metagenome / Metatranscriptome223Y
F022636Metagenome / Metatranscriptome213N

Sequences

Protein IDFamilyRBSSequence
Ga0255236_10070883F022636N/AMSTYRRATLQDLAKIGYVPNTEKYYKHMAFAKKYYPPEATTMVMVVHSEYNDSTYDNSFQYIIVYDKDGNELTPLKKTAKECRENWSIDNLPIPNTSHGHYGASESDEPLDDVVIPLTSEIPELYVKEN
Ga0255236_10070884F020529AGGAGMFSNYNIWKYCAKYFFLSIAAAYIYNTAATFINQKSDVANLIGSTLFAGLFIGSGLILKSDVTKLVKNLNENKEKKQNKE
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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