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 Ga0160423_10076386

Scaffold Ga0160423_10076386


Overview

Basic Information
Taxon OID3300012920 Open in IMG/M
Scaffold IDGa0160423_10076386 Open in IMG/M
Source Dataset NameMarine microbial communities from the Costa Rica Dome - CRUD Field 142mm St8 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2390
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (62.50%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Oceanic → Photic Zone → Surface Seawater → Marine Microbial Communities From The Costa Rica Dome And Surrounding Waters

Source Dataset Sampling Location
Location NameCosta Rica: the Eastern Pacific
CoordinatesLat. (o)8.7051Long. (o)-86.4906Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F013482Metagenome / Metatranscriptome271Y
F014153Metagenome / Metatranscriptome265Y
F014276Metagenome / Metatranscriptome264Y
F021990Metagenome / Metatranscriptome216Y
F078591Metagenome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0160423_100763861F013482GAGGMTDKQVTIKNLKDRQKEINEEIEYKNTQSLSEELYEIEDTLKKLGVNE
Ga0160423_100763863F014276N/AMIHKISDLCKKIDGLKVISDRLYNTKYNQPKTPERDAEVNNMIDDIQATCKLIASDDKPYDK*
Ga0160423_100763864F021990N/AMKLKDTIMIAIAALAFLLITGIAKANPITNWITNEKNKIVEYQTTNWAKGKEQLANTKQSILNLFKKKDDTQN*
Ga0160423_100763866F014153AGGAMIYTKELLFSEFKEVTKKDEKSKKPSYKHRIAYLQSLKEDFDKSPKHFSNLNITSQQLQNLIDDWSAPKPIDAFYMRIFGMTFAEKKQQEELEYFIYENGEKKEVRKSKEETLSIH*
Ga0160423_100763867F078591AGGMIRGVDRVESCTISSLSGRSAAENLVKSTIFRGLTIKSIPDSINTINLNKGQ*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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