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 Ga0181406_1049413

Scaffold Ga0181406_1049413


Overview

Basic Information
Taxon OID3300017767 Open in IMG/M
Scaffold IDGa0181406_1049413 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 29 SPOT_SRF_2011-12-20
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1301
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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?
F014506Metagenome / Metatranscriptome262Y
F021305Metagenome / Metatranscriptome219Y

Sequences

Protein IDFamilyRBSSequence
Ga0181406_10494132F021305AGGAGMKRKHITIISLLIISAWAIGYFNQYYRAPKIEYVEIEKLQTVIDSIYIEKLVEKKVYIPKYITETKTDTITIELIKEIEKPIEVIKTVYVDKPYEVIVPKYELPESKWYAGFAYQYDLENYFSGANVQILHKFKSDKMFSLDVGFRNDLLDKETGVGKLRPYVGGTIYFRLDKPKSNF
Ga0181406_10494133F014506N/AMSMQALTREYNQVLAIGASQASIYGDITNTANLQIYDNLKQVGLSLGRSKVSLNENYQVTWVDAANLSYMRNYQMNSTTLSLSRMKPMGKYGTVGLGVSYSFMFGKDALGNTMPKMGSGGYNILYTNMVKINDRIMYTPALIGAQNPISYTQKMDGFDAFSSTSKDFIGILANSFTIQLTKSFSFNAGWTIIYSSNEFVPIMNSFMIGAKLPF
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