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 Ga0208916_10000135

Scaffold Ga0208916_10000135


Overview

Basic Information
Taxon OID3300025896 Open in IMG/M
Scaffold IDGa0208916_10000135 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_0.19_<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)34961
Total Scaffold Genes55 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)43 (78.18%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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?
F002343Metagenome / Metatranscriptome568Y
F015721Metagenome252N
F042306Metagenome158Y
F064514Metagenome / Metatranscriptome128N

Sequences

Protein IDFamilyRBSSequence
Ga0208916_1000013543F064514GGAGGMRTPYQSFNAPATMNGGRGQRLARMLQMQGQSQQISNNAGAQTDMQYNPPQNAADMNPAPRQFARMYPRKPKTPGMVNPQGGPDRGSFENG
Ga0208916_1000013547F002343GGAGMSDAKLEMSLEEAVAVVNLLGSLPTSQGAHPLWQKLKAQVEAQLPPTEETKQ
Ga0208916_100001355F015721GGAGMNPSDFESRFRASRPAEIVVATYLLNIGHTVTLPKRRMAKDFADRAEYADKGDIYASGKRIEVKHVKHDFDYQAWPFEYAAICAKKSFDAADPRPDYYYIVNKSMTVAALVDVATTRPEWLIRRLPDRQRGYDYDVYALMPEYLGWRYLNFEEKL
Ga0208916_1000013552F042306GGAMAKKDRYKAVQINDGTWYRIKGYTHAECCDCALVHKEQYRLVDGHLEWMAERDDEATKARRKELGIKVTRNAKIHKR
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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