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 Ga0187219_1020898

Scaffold Ga0187219_1020898


Overview

Basic Information
Taxon OID3300017751 Open in IMG/M
Scaffold IDGa0187219_1020898 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 13 SPOT_SRF_2010-07-21 (version 2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2391
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 → Viruses → unclassified viruses → Circular genetic element sp.(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.55Long. (o)-118.4Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F030418Metagenome185Y
F086299Metagenome / Metatranscriptome111N

Sequences

Protein IDFamilyRBSSequence
Ga0187219_10208981F086299N/ADPNATAQILNNLGTYPRMNFNASLVFFILTKRFRNDGPVVTKAAVRKTKTTLRRMKGVVDMYNSVCKPTTRRAPARRAAPKAVQLIKN
Ga0187219_10208985F030418GGTGGMGLLDSIGTVLDRVVPTAFAFATGGPAAAVTTAAGVERAKKNEKALERAQAMYQQDPGLSQGFSGIQPSTASAGSGSFFGNLGQSIGSFGRDVGGFVQDIAPALNLFGIGGQPQRTNAGTAISVDVGRPEESASSGEILGASLGMAPALFQAGRNFLRTPGGQTALGFGGAALGAAFSGDGSAAPRITRKMKSDVRRIYMMAGMDPNATAQILNNLGTYPRMNFNASLVFFILTKRFRNDGPVV
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