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 Ga0075468_10043895

Scaffold Ga0075468_10043895


Overview

Basic Information
Taxon OID3300007229 Open in IMG/M
Scaffold IDGa0075468_10043895 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_Spr_30_<0.8_DNA
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1543
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

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?
F005720Metagenome / Metatranscriptome392Y
F049044Metagenome / Metatranscriptome147N
F051469Metagenome144Y

Sequences

Protein IDFamilyRBSSequence
Ga0075468_100438952F049044AGGAGMATKNNFSLNQNYELQGVDVTLLTVDFIVDVSAEVGDLTSGSTVAGLDMTRHAFAHHGLQILAEGPLVDSDTQKTYMVRTDNLDSLSSTTTIAALQAYIRTLDQSSSSFPGVTADLTGATVTETKIGILTANAVA*
Ga0075468_100438953F005720AGGAGMATSNATANMCRRQAFTGKGITFIEMMFDDEMVTTSTTPDTKDSVFNEMSKLVGTFGTIIAQSYALGCKATEKDAALATSIIEDELCDYYTFAVEGTPGQFNAADSAGDVNADPDQANASDPGVIADAEADIEVEILARISENDSAGGVHVDVRYLPADGVTSAGAEVVYGFNSARVNA*
Ga0075468_100438954F051469AGGAGMIEKFTVEIEVGDRVEVGRMHLANQTIKAIEVDKWGHPVMVLESGRRRGLFNMRLKKLIPEDVKRVQEPSEVMMTKEQWAEAQAKIDQ
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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