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 Ga0256308_1018566

Scaffold Ga0256308_1018566


Overview

Basic Information
Taxon OID3300024549 Open in IMG/M
Scaffold IDGa0256308_1018566 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from Columbia River, Oregon, United States - Colum_Atlam_RepC_8d (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1519
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (33.33%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)46.1812Long. (o)-123.1834Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F016528Metagenome / Metatranscriptome246N
F028145Metagenome / Metatranscriptome192N
F030360Metagenome / Metatranscriptome185N
F045700Metagenome / Metatranscriptome152Y
F074576Metagenome / Metatranscriptome119N

Sequences

Protein IDFamilyRBSSequence
Ga0256308_10185661F016528N/ANELFAKVLADNPLPYRFGDKVNTNRGIGYISGYNFKDREKTWKFTIRPYGLPNYYIDVETVYRKVE
Ga0256308_10185663F028145N/AMKLFLVFFINLALSLGTSILLYKLFKVDVSPTIISIGLIVGYMFLPQRFHDWIAEK
Ga0256308_10185664F045700GGAMNIRPSQCFECETGTYKDVTVNYYSQLNDGKGCVTKDVTIQRCDTCGAEIFDSRASQMVENNIRQQYPDYYEHSRSRKFKK
Ga0256308_10185665F074576N/AMEFRGKQRQMNDRTVIEAYNPATNQTFFYSFDEDFFWFPGQIPDYKLPKSILT
Ga0256308_10185666F030360N/AMSEQTYMNLKDAVKRPVLSEKTVNRSNKAFVRMVDSYQKWNESITADEPRATYEDDIFNCLFEYDMDGYNLAEYLKSKVYLEPDADLCAILDDMIYVKKSLEDEMLKQWVKENFLTIPDDVIGKKVNAKQGYKKYENHYITTIRPDTYEVTISDNINKKGGWIIKYEDVTFLRKFLLFDSCK
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Institute for Fundamental Biomedical Research
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