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 Ga0208926_1000259

Scaffold Ga0208926_1000259


Overview

Basic Information
Taxon OID3300027205 Open in IMG/M
Scaffold IDGa0208926_1000259 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1449B-3 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10094
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (63.64%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
Not Available(Source: )

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 NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2327Long. (o)-123.9168Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F015082Metagenome / Metatranscriptome257Y
F021761Metagenome / Metatranscriptome217Y
F041026Metagenome / Metatranscriptome160Y
F094945Metagenome / Metatranscriptome105N
F106141Metagenome / Metatranscriptome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0208926_100025910F106141AGGTGGMTKTRAVFFQKGENRIVIWTNHTRWTVTDMVAGGTKQYTKQLAMALSASLMAEGYEATVH
Ga0208926_100025914F094945GGAMKPAIERGEKCYNARLTEEQVRLARIYVMQGPVGVLPQLARKWGVGTQTLRNAVIYKNWKHIPPPTAEEIAATPLPSWVETVGRGTERAHCGRCVHWDHNRGCTMGIPESGNGGFFAASCAAYAVTSLAD
Ga0208926_100025918F041026N/AMTNIFRTIALELGRTLLKLAVDRALRKELPAIFAKLDIELPSMLIDHAKPLEVQAVVTDIIEENIKHTATATQVSAILGLYDPVRAAIRNLKR
Ga0208926_10002593F021761AGGMITNPWVNRITALVVLAAIYAAGYAGGRDQATLAHHNHPACNTNLKP
Ga0208926_10002594F015082N/AMSESDIYWTFVTASKYAGSFYQAMGNAGLAADPNNKRRILAAFPEMVATYGAASRLHQTMRAGVAA

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