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 Ga0070742_10006526

Scaffold Ga0070742_10006526


Overview

Basic Information
Taxon OID3300005942 Open in IMG/M
Scaffold IDGa0070742_10006526 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.757
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3038
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003769Metagenome / Metatranscriptome469Y
F011629Metagenome / Metatranscriptome289N
F077379Metagenome117N

Sequences

Protein IDFamilyRBSSequence
Ga0070742_100065265F011629GAGGMLSNWTKLENLNTTQVKELITHRFGGSLKQVYLNKCYSNKQEIADKRNMAFAVDGDAYKGVDLTALAQEIGCKRVKLHTAFLRGMQSGAWLRLQHVNYNK*
Ga0070742_100065266F003769AGGGGGMQQLKTLTVKTSNKVKSVHMETLYAVIENCYNSLQVIESDCTASNYFCASANIFAQLQYLYANNECNDYVSLESVMDVFANNVTYYDEEYSLYESVVENTAMQKIKLQDYACLSN*
Ga0070742_100065267F077379N/AATLCTTTNTIFVHKNNKAHLQYTVNSEKVIHNANAQQLQAFYKLPSTVMQKTKNFNKLINTNLLKQLFTTP*
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