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 Ga0209716_1000397

Scaffold Ga0209716_1000397


Overview

Basic Information
Taxon OID3300025626 Open in IMG/M
Scaffold IDGa0209716_1000397 Open in IMG/M
Source Dataset NamePelagic marine microbial communities from North Sea - COGITO_mtgs_120531 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)42436
Total Scaffold Genes64 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (15.62%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Pelagic → Unclassified → Pelagic Marine → Pelagic Marine Microbial Communities From North Sea

Source Dataset Sampling Location
Location NameGermany:Helgoland, sampling site Kabeltonne, North Sea
CoordinatesLat. (o)54.1883Long. (o)7.9Alt. (m)Depth (m)1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008577Metagenome / Metatranscriptome331Y
F056035Metagenome / Metatranscriptome138Y
F060358Metagenome / Metatranscriptome133N
F104912Metagenome / Metatranscriptome100N

Sequences

Protein IDFamilyRBSSequence
Ga0209716_100039713F056035N/AMSLLYKPKEEQTLTCDIKQENNKIVIDFWADCGKFGTDEMLDGYVLTPERLLQILQDRDDYTDDEL
Ga0209716_10003972F008577AGAAGMVLTNEEIKSIANRLDEIIGDNFHDAMWNTISERDVDYNFEVSDEDILKIKQQLKRII
Ga0209716_10003973F104912N/AMKVMTMKETCVYVVQKRKADAVQHRKTVTQGEYCSGLTAKEYRKVRTKSKGAGSKGRSFSHTRLWNHHHHPA
Ga0209716_100039752F060358AGGAGMDEDLKNVVASVGLFIDNILYDMRNVSKSTTKPVILAHIEAWKNELETIKSFTQT
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