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 Ga0181412_1022231

Scaffold Ga0181412_1022231


Overview

Basic Information
Taxon OID3300017714 Open in IMG/M
Scaffold IDGa0181412_1022231 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 35 SPOT_SRF_2012-08-15
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1764
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (88.89%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

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?
F008925Metagenome326Y
F013187Metagenome273Y
F023748Metagenome209Y

Sequences

Protein IDFamilyRBSSequence
Ga0181412_10222314F013187AGGAGMITKKIKKKSKKNTWVYIYGDECQEIWKHFGLDFPNPDDRMKLKFVKYETKEMQDG
Ga0181412_10222317F008925AGGAGMTTKTKPKIDAVTLNLVNKLKQIDDTINEGAWEYIHLGDILRLQDAFQEAINHYDLKKKGGIGEHGVDEGKYTQFWHSDYVCHTDPEAYDPSKVEEEDDE
Ga0181412_10222319F023748AGGAGGMSEYKYTYRFSEQTVDTRYYKVESNTKLTRCEMQDLAWSVEQIDGESFRCNEGRATFEGTEVGDDAQYQMEEGAENLLNEDDYDWS
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