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 Ga0222713_10218250

Scaffold Ga0222713_10218250


Overview

Basic Information
Taxon OID3300021962 Open in IMG/M
Scaffold IDGa0222713_10218250 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_649D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1263
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → Viruses → Varidnaviria → Bamfordvirae → Nucleocytoviricota → Megaviricetes → Algavirales → Phycodnaviridae → Prasinovirus → unclassified Prasinovirus → Yellowstone lake phycodnavirus 2(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.06Long. (o)-121.8Alt. (m)Depth (m)12
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002009Metagenome / Metatranscriptome604Y
F011753Metagenome / Metatranscriptome287Y

Sequences

Protein IDFamilyRBSSequence
Ga0222713_102182501F011753N/AFSEWAEKNVEKTYWCEKGLVGAGYAGRCDAYVKLRGIGDAIIDLKNRKVNPKYDPFYDTDCAQLWAYRNASENPKCACMSVVLASNDATKLMTKVWDEDELYQAGIAFCAMQKVWSWVKGYTPPGMKL
Ga0222713_102182503F002009AGGAGGMTAPTIQEMGNAAQEIVWRVMGKGSDKSGYGDWLEKDRPTHDYHIARAVRHLATAQMQLHKSSPCPDNNGETSVDHLERALVRSLFVLAQIKKEVPRL
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