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 Ga0208147_1016452

Scaffold Ga0208147_1016452


Overview

Basic Information
Taxon OID3300025635 Open in IMG/M
Scaffold IDGa0208147_1016452 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_Fall_0.3_<0.8_DNA (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2005
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (14.29%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
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?
F001345Metagenome / Metatranscriptome718N
F004837Metagenome / Metatranscriptome421Y
F012449Metagenome / Metatranscriptome280Y

Sequences

Protein IDFamilyRBSSequence
Ga0208147_10164524F004837N/AMTQDEYLLATKHRHYWDQYQAALFMRLSPEAVHDLQTILVAHGRPNTNWWCADCVKSALQYIYEQADQFAEANHHQVTHALNNPNP
Ga0208147_10164525F012449AGGMDTLIFPLLISSLTALAIAEYRVLPRWFYHTWFGRHKPFSCVTCLTFWVAVALTLPTCGWVLAPVYGLASAGLTVVILQVTNR
Ga0208147_10164526F001345N/AMASAETVILDLYRTGEIRKACLTITGGDPLWRDLEQECVLILLEKDPAKILQIQSQGYFKFYVVRLLLNLYRGKNNQFAQKYRHHDLLEELDPDSPIPQSEYDSLMDDLWAIAEAEMDTWAKDGAFPYDKELLRLHLRTGNMKKLSRDTGIPYRSIIYSIDQAKAKIKAAIQSHGHADISPAD
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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