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_1000027

Scaffold Ga0209716_1000027


Overview

Basic Information
Taxon OID3300025626 Open in IMG/M
Scaffold IDGa0209716_1000027 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)140685
Total Scaffold Genes162 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)60 (37.04%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (16.67%)
Associated Families6

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?
F003777Metagenome / Metatranscriptome469Y
F024651Metagenome / Metatranscriptome205Y
F031507Metagenome / Metatranscriptome182Y
F043937Metagenome / Metatranscriptome155Y
F050481Metagenome / Metatranscriptome145Y
F071656Metagenome / Metatranscriptome122Y

Sequences

Protein IDFamilyRBSSequence
Ga0209716_1000027112F031507N/AMINTKIKFENKYGQIQEGVVTDANYQCDWDKDLNGCIQVEVDYGSSIIGTVNTLIDKSQI
Ga0209716_1000027155F043937N/AMNEIKFTQFKELNYKPLTIGLWRPYQVEVGFVEDYIKRSGKENDLIILFKSQNQK
Ga0209716_1000027156F071656N/AMTDHEALSKQLHENQMANKSYRNLPQRIMMKRWEECDRDVFKFWDSIEWDSTWLRHDTEEEKYAKDVTREYNRHPFRKFIPKPKEYVEL
Ga0209716_1000027160F024651N/AMYNNATFVDKEQLENLKKMDNFVKDNMVRFTEEVGMQVREVITKIIEKGHYYESEAEVLNMIANEYNQYKKENR
Ga0209716_10000276F003777AGGAGMSKKKPNIVTPFDDKQRFRELVNEVISDTSIFTHIPDSISLSGNLFTVTLSNKRFVFEEIKVDSSADYVDVYLQGVKKTSSSYSVTQNETDIVINFTENITLAPELVVYTDFSVKGKIVS
Ga0209716_100002791F050481N/AMDKKEITAEVRRLKLIKPQTQKIKLQIQKLQQKLEE
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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