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 Ga0210298_1189342

Scaffold Ga0210298_1189342


Overview

Basic Information
Taxon OID3300021328 Open in IMG/M
Scaffold IDGa0210298_1189342 Open in IMG/M
Source Dataset NameMetatranscriptome of estuarine water microbial communities from the Columbia River estuary, Oregon, United States ? R877 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4160
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)46.217Long. (o)-123.781Alt. (m)Depth (m)1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F049628Metagenome / Metatranscriptome146N
F059968Metagenome / Metatranscriptome133N

Sequences

Protein IDFamilyRBSSequence
Ga0210298_11893424F049628N/AMKFEHVIQHLMHGKPITRVCFDHDVYIRYSDLFEAFVMHTGTESKTLQGLTLDPESLFATDWMWGEDHPVKDEITWTRTTS
Ga0210298_11893425F059968GGAGMSKNTKLEERTQLLVQIKELRAAGNSISRTAQIMKMTRGTVQRWINEENPDRPVKKMDPYISLDEKTAIVVKWAELIASGETRSNAAASVGFPTMMLNRWLMSEPALRVEFQECIGKKQNNTGRKSFESIMTDVRAGRPVWRDGARFKLQLVDAALMRYELDGANVWRCKGFATLSGNDVLARDWLVMKNEV
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