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 Ga0208022_1004675

Scaffold Ga0208022_1004675


Overview

Basic Information
Taxon OID3300027418 Open in IMG/M
Scaffold IDGa0208022_1004675 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Freshwater metaG S.747 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3450
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families2

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2Long. (o)-123.94Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001872Metagenome / Metatranscriptome623Y
F044439Metagenome / Metatranscriptome154Y

Sequences

Protein IDFamilyRBSSequence
Ga0208022_10046751F044439N/AMGSAHTFGETMNYFAEKIIGLVLCTVFGFTVAVGAPDASGSPSGTIALAPYLLEPSTTTSSTSSTIYIDPYTSACQQFSALAVNLGWPADQRTVLESIMQRESNC
Ga0208022_10046752F001872N/AMNEWIKQALVLSNGALWNNGSWGVRDMRGSAGTLSVHATGRAVDLSYRKSERHENASRKGALEFIDIVVANANTLGVECVLDYFPAPYGRAWRCDRQAWKKYSKPTIHGAPGGDWFHIEITPQAADSVIFVKAAFLKVFGEIPPKA
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