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 Ga0209306_1033915

Scaffold Ga0209306_1033915


Overview

Basic Information
Taxon OID3300025680 Open in IMG/M
Scaffold IDGa0209306_1033915 Open in IMG/M
Source Dataset NamePelagic marine microbial communities from North Sea - COGITO_mtgs_110328 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1721
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (55.56%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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?
F018079Metagenome / Metatranscriptome237N
F021862Metagenome217Y
F080233Metagenome / Metatranscriptome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0209306_10339155F021862GGAGGMFTRLRRWFEAWKKNLFDAYDPPKPTIYVLGKKKFIRKKVLNRPKGQKGPYLK
Ga0209306_10339156F018079N/AMYTVEKRKMIYIISRKPTWFHTHCLTPTPGTPLWFDPTWVIGDCELCRMDIDNQDWWNNCSYNQSQRKFYDLIEKDLKVWI
Ga0209306_10339159F080233N/ARIINSMFYIWHTLIIATFIAVAYYMGYQHGGKKAKVKETIRKS
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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