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 Ga0255243_1035462

Scaffold Ga0255243_1035462


Overview

Basic Information
Taxon OID3300024569 Open in IMG/M
Scaffold IDGa0255243_1035462 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from Columbia River, Oregon, United States - Colum_Atlam_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)1287
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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?
F000962Metagenome / Metatranscriptome820Y
F028145Metagenome / Metatranscriptome192N
F045700Metagenome / Metatranscriptome152Y

Sequences

Protein IDFamilyRBSSequence
Ga0255243_10354621F000962N/AMNIHVPENLKSKYPYMEFRGKQRQMNDRTVIEAYNPATNQTFFYSFDEDFFWFP
Ga0255243_10354622F045700GGAMNIRPSQCFECETGTYKDVTINYFSELSDGRTCITKDVTIQRCDTCGAEIFDSKASQLVENNIRQQYPDYYEHSCSRKFKK
Ga0255243_10354623F028145N/AMKLFLVFFINLTVSLLSSILLYKLFKVDVSPTIISIGLIVVYMFLPQRFHDWIAEK
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