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_1001454

Scaffold Ga0255236_1001454


Overview

Basic Information
Taxon OID3300024563 Open in IMG/M
Scaffold IDGa0255236_1001454 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)4789
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (23.08%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

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?
F000716Metagenome / Metatranscriptome923Y
F074450Metagenome / Metatranscriptome119Y

Sequences

Protein IDFamilyRBSSequence
Ga0255236_100145413F000716N/AKMEKLKQQIRNYQLQSGKTYMQYEQDKYSIYQNYLYKRALYGLDALNQEELATMCSKKKQRIVNVYKRAQVVLNTFKQKLTIKYSNSLFNILFPNSNLTKELVNLNETDEKFKNTLTFKDLNIDKDQIISIFIAEGILPKNFLSLKEAPVSLPMLKNANKA
Ga0255236_10014546F074450N/AMEDYTKEDVLQALSKITLNVRKRVLVDQRSYLIGILAYRFMMTEHTIAKFTGLNRNRVNYNKKLALDFYKDKSYMQNVYVYAQMFPFDFSIIMRGGSISDRSVRVELDLDRKFYNKLKAAGAIKGQSDIRLIIKFLLEKSLTIWEE

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