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 Ga0255277_1003804

Scaffold Ga0255277_1003804


Overview

Basic Information
Taxon OID3300026569 Open in IMG/M
Scaffold IDGa0255277_1003804 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from Altamaha River, Georgia, United States - Atl_Cont_RepA_8d (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3599
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (14.29%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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: Georgia
CoordinatesLat. (o)31.4271Long. (o)-81.6053Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000716Metagenome / Metatranscriptome923Y
F010462Metagenome / Metatranscriptome303Y
F022861Metagenome / Metatranscriptome212Y

Sequences

Protein IDFamilyRBSSequence
Ga0255277_10038041F010462N/AMQVMLYQLPNGKVIHLTIEEFLSLTDEDIQYLMSIDFGEHIRDPFTGSAVENNKREKFIDTEFLPMEDYDLNDIASDDLPFDDIIDLTDPMDN
Ga0255277_10038043F000716N/AMYKMEKLKQDIRDYQLNGGKTYMQYEQDKYSVYQNYLYKRALYGLSALSEKELATMCGKKKQRILNVYKRAQNVLNIFKQKIAIEYTNKIFLSLFPKSSITKDLVNCNETDEKFINTLTFKDLNIGKDQIISIFIAEGILPKNFLSLKEAPISLPSLKNESQA
Ga0255277_10038047F022861GAGGMKAICIDSSNKPSKIPDNEWVIEGEIYTITRVIRMGLQQNKFGVLLKEVQLSSNSFPYELYDADRFLPIDLLAEAYQEKEEAVE
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