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 Ga0208149_1035896

Scaffold Ga0208149_1035896


Overview

Basic Information
Taxon OID3300025610 Open in IMG/M
Scaffold IDGa0208149_1035896 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_29_D_<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)1337
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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?
F002942Metagenome518Y
F021100Metagenome220Y
F027836Metagenome193N
F093801Metagenome106N

Sequences

Protein IDFamilyRBSSequence
Ga0208149_10358961F027836N/ATKGNTMDNCKACGNPLADCEELSTTCEGCEQMAQAKQLPGDLWTIGTALADAVGIARTTLISAADRAAFPVVVLGCGSRAALRADVAAWVAGVRGGE
Ga0208149_10358962F093801AGGGGGMFQYPTENTTAPICPYCQAPHPEPEDLDESEAHCIECDDCGKLYGAYCDYQGWSTRCGGNHNWHRMNGVRVCSRCGADG
Ga0208149_10358963F021100AGGMNDEQRIAQAAMTIAGCIFEDADQPTLVAKLQHCCEWQNEGTDDDLTQADRDGLRLLLDAAAGISSSLCNSETGAVIRTPTVEEVCESVVVSLEGHIMVDGVQCYVEL
Ga0208149_10358965F002942AGGAGMTDEQFTAFSILLAAVSLPSVSLLFAGAWELWRYTKRAGNER
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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