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_10003030

Scaffold Ga0075471_10003030


Overview

Basic Information
Taxon OID3300006641 Open in IMG/M
Scaffold IDGa0075471_10003030 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)10980
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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?
F000258Metagenome / Metatranscriptome1443Y
F001229Metagenome / Metatranscriptome741Y
F003408Metagenome / Metatranscriptome488Y

Sequences

Protein IDFamilyRBSSequence
Ga0075471_100030302F001229GGAMIGLIESLLTMTMDVYRQVDSQDSNTGAISKEWIFYKTLDCHAKGVVSNSTTMRSNDRQVFENKYLNEQYIQIRSLDKLTAREKVTNIKDSDGKIIWKELNYPTESPTVFEVIGTTPITDPLGRVIGYSSSMKRSENQQIGL*
Ga0075471_100030304F000258GGAGGMTADYKIDSMFELRKFLWGKLVEYNIFIPEDYYSDNLGTEIVPIIPIQQSPELSQFLSGKKHIVYDKIGMSYDDIWQICTEQILFTVYSSEILDIVEIRNFMTDEFRRMDLSARDVNRFATISDKIKFHSIYISDMSPTAPSEELKGFLATDIVLEVKYSRMLDAYGRYL*
Ga0075471_100030307F003408AGAAGMPELIHTFEAIQKNEEQKRIFLASLEGKTLEGSQEQEGPTFEDIQLKAAGINASKDDIVSLQGSFAEAAGFGIGAGLGYSKE*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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