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 Ga0255242_1056447

Scaffold Ga0255242_1056447


Overview

Basic Information
Taxon OID3300024554 Open in IMG/M
Scaffold IDGa0255242_1056447 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from Columbia River, Oregon, United States - Colum_Law_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)860
Total Scaffold Genes2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
Not Available(Source: )

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?
F024095Metagenome / Metatranscriptome207Y
F058935Metagenome / Metatranscriptome134Y

Sequences

Protein IDFamilyRBSSequence
Ga0255242_10564471F058935N/AKLQTVLNSGVLEVKFAQKLYYQIARPFIQCPAGFGIDVQSLASSRTGAVTETQLNDTNWLARSDYRATAVYNIDPIQIVEPEIQIQAAINFPNGNTPNFTNSALDSATPSVAQTPAVELGLIFDGYVIRPSQ
Ga0255242_10564472F024095GGCGGMDNTNSLPFVYVVTASLGGAVGATVSTTLIMQADSRFELMGIMGTGGTAATTEDSLQYPNSFTVSIRDQTTGRDLMSAPVPQRVLCGNAFKQFLEKRGIIFEPQSNLLFTFTNLTADANSITLALHGYKIIL
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