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 Ga0244775_10004097

Scaffold Ga0244775_10004097


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10004097 Open in IMG/M
Source Dataset NameWhole water sample coassembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)15283
Total Scaffold Genes41 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (29.27%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families6

Taxonomy
Not Available(Source: )

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009073Metagenome / Metatranscriptome323Y
F017827Metagenome / Metatranscriptome238Y
F021984Metagenome / Metatranscriptome216Y
F035310Metagenome / Metatranscriptome172Y
F067745Metagenome / Metatranscriptome125Y
F103240Metagenome101N

Sequences

Protein IDFamilyRBSSequence
Ga0244775_1000409723F067745N/AMSIYITPDNGSLTMQGSGKVQIKTSIKIYGTGTELPVTIEADFNNIPHNLHYLYYQSLVSNYNTNIVAHKNLSKVEDEPKTIKEKKSEWRLNRIVELISNVIKK
Ga0244775_1000409732F017827N/AMSYTSMNYERFGLYKNIPATKQPVKKAGLPTITFTDMFGRNFFFPYRTKKQRSEISDILRLLKAENNLLNRILSDYSVKMGKYVNESKLRAELKQAFGFSKSNIDSILTIH
Ga0244775_1000409733F009073N/AMKNYQIILTSFLSFFVAVTILDGTAAKYVHFAGPMNELGCAVIALTMGCLSFFAIDWKSFVNFLNK
Ga0244775_1000409736F021984N/AMSYTIPRGYTITPKVKYLRTKEGKKRTNLVELTNKRRGIAKLFGNEEYAIKYIQSLEVEKVTKNALAGKGAPSIGKGAILAAGRDIEAGKELNGVYDDMTNEEAKQLDNPFFQPLKLI
Ga0244775_100040974F035310N/AMRKLDLVNVGDELYEVIRRIPYQKFNKSLEGDAAKDLREWIGCEKILKSNQTNEYLFVNLIEEAKLCDE
Ga0244775_1000409740F103240N/AMKYTLVSKIPTRKEVLRIGRQAERWCRDNMGLNSRKKFDPTITYYQSVPADVCMGEYRYWDNEIIVYYNNTPNVKAFIQTIIHEWQHQLQPMTKYEGMDERHGYHNNPMEIEAVEAEQMYYKRLWKAIKPKINK

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