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 Ga0075471_10003089

Scaffold Ga0075471_10003089


Overview

Basic Information
Taxon OID3300006641 Open in IMG/M
Scaffold IDGa0075471_10003089 Open in IMG/M
Source Dataset NameAqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Sum_0.19_D_>0.8_DNA
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10836
Total Scaffold Genes34 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)28 (82.35%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Coastal → Unclassified → Aqueous → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series

Source Dataset Sampling Location
Location NameUSA: Delaware Bay
CoordinatesLat. (o)39.283Long. (o)-75.3633Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001507Metagenome / Metatranscriptome681Y
F002515Metagenome / Metatranscriptome552Y
F004840Metagenome / Metatranscriptome421Y
F007263Metagenome / Metatranscriptome354Y
F093845Metagenome / Metatranscriptome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0075471_1000308916F004840AGGAGMDYEYLVTCQYDYEESPHWKERYESEFDAWKSFFSFTDWGMANEYSTVNIYTHTGKCYTKIFYRDGRVVTR*
Ga0075471_1000308919F002515N/AMKQKKTQEELRILMELRRSNAASAIPNKKKYNRKKCQSLMLELKKERGPQYD*
Ga0075471_100030892F093845AGGAMIKVTLTSVSGTTKGMSFDTKENLMTFIDQLSDSLPLGTALCVDAPLVGIHNGWVQGKAKSSLV*
Ga0075471_1000308927F001507N/AMTQTKYKPYTIDELCTEIYEDNYSHIEFIENMNGGDCDCAIHTTMATILKYWGE*
Ga0075471_100030895F007263GGAGMIKEYIDENEFYFVKDEMRFCCDESQFRYVCKAHGEAMGCYYCEFDYSKPCDCEDYN*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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