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_1006493

Scaffold Ga0181412_1006493


Overview

Basic Information
Taxon OID3300017714 Open in IMG/M
Scaffold IDGa0181412_1006493 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)3753
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (85.71%)
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?
F043681Metagenome / Metatranscriptome156Y
F044800Metagenome / Metatranscriptome154Y
F101195Metagenome / Metatranscriptome102Y

Sequences

Protein IDFamilyRBSSequence
Ga0181412_10064934F044800GAGGMAVASTNAWKVNVEETIQQGIKNEFFSSLPIFRSKDFQHRGNQFCIIKGIDSDAQDTMYSVLPNNYNLTLEFFMLDHKRNDITVKRFFNMVSRVEEIFYTLVDLDPLFSCTINAITYEDDEEFNGYRKATFDITVGNVR
Ga0181412_10064935F043681GGAMALTYENITYEKIMTPLRDKLRTEFKGGLPIYFDNQHQDIGTKSLRIYPTSQELVEKRTKSYINVYNIQMDYVLKTYRDDEKALDQMYKDVTRIETILFNNSNGGDIPYFYAGMPEVEHNVDAGIDNVYVSRITVPVLYEEVHERFVRFITSNDKFFVTSDGLFYIVRS
Ga0181412_10064936F101195AGGAGMAKKYKLKDGLLPRKPSFLKLGKEKWYLLNSGKSVELDIVPELAKDYIEEVKSKAKKEVKNDGE
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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