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 Ga0255242_1033613

Scaffold Ga0255242_1033613


Overview

Basic Information
Taxon OID3300024554 Open in IMG/M
Scaffold IDGa0255242_1033613 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from Columbia River, Oregon, United States - Colum_Law_RepB_8d (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1169
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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?
F030360Metagenome / Metatranscriptome185N
F045700Metagenome / Metatranscriptome152Y
F074576Metagenome / Metatranscriptome119N

Sequences

Protein IDFamilyRBSSequence
Ga0255242_10336132F045700GGAMNIRPSQCFECENGTYKDVTVNYYSQLNDGKGCVTKDVTIQRCDTCGAEIFDSRASQMVENNIRQQYPDYYEHSCSRKFKK
Ga0255242_10336133F074576N/AMEFRGKQRQLNDRIVIEAYNHAINQNFFYSFDEDFFWFPGQIPDYKLPKSILT
Ga0255242_10336134F030360N/AMSEQTYMNLKDAVKRPVLSEKTVNRSNKAFVRMVDSYQKWNESITADEPRATYEDDIFNCLFEYDLDGYNLAEYLKSKVNLAFCDAELVDILDDMIYVKKSLEDEMLKQWVTENFLTISDDVVGKKVNAKQCSRKYENHYITGIRSDTYQVTISDNINAKGGRIVGFENVTFVD
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